Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 98 of 143
Found at i:30310736 original size:23 final size:23
Alignment explanation
Indices: 30310709--30310755 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
30310699 AATTTGAAAA
*
30310709 TAAATTTAAACTCAAA-TTAAATT
1 TAAATTTAAAAT-AAATTTAAATT
30310732 TAAATTTAAAATAAATTTAAATT
1 TAAATTTAAAATAAATTTAAATT
30310755 T
1 T
30310756 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATTTAAAATAAATTTAAATT
Found at i:30310755 original size:52 final size:52
Alignment explanation
Indices: 30310677--30310787 Score: 150
Period size: 52 Copynumber: 2.1 Consensus size: 52
30310667 ACATTTATTC
* * * *
30310677 ATTTAAATTTATAATAATTTTAAATTTGAAAATAAATTTAAACTCAAATTAA
1 ATTTAAATTTAAAATAAATTTAAATTTGAAAACAAATTTAAACTCAAAGTAA
* * * *
30310729 ATTTAAATTTAAAATAAATTTAAATTTTAAAACAAATTTAATCTTAACGTAA
1 ATTTAAATTTAAAATAAATTTAAATTTGAAAACAAATTTAAACTCAAAGTAA
30310781 ATTTAAA
1 ATTTAAA
30310788 ATGGGTTTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (52 bp):
ATTTAAATTTAAAATAAATTTAAATTTGAAAACAAATTTAAACTCAAAGTAA
Found at i:30310766 original size:35 final size:34
Alignment explanation
Indices: 30310677--30310787 Score: 116
Period size: 35 Copynumber: 3.2 Consensus size: 34
30310667 ACATTTATTC
* *
30310677 ATTTAAATTTATAATAATTTTAAATTTGAAAATAA
1 ATTTAAATTTAAAATAAATTTAAATTT-AAAATAA
* * *
30310712 ATTTAAACTCAAATTAAATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAAATTTAAATTTAAAATAA
* **
30310746 ATTTAAATTTTAAAACAAATTT-AATCTTAACGTAA
1 ATTTAAA-TTTAAAATAAATTTAAAT-TTAAAATAA
30310781 ATTTAAA
1 ATTTAAA
30310788 ATGGGTTTGA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
34 17 0.27
35 46 0.73
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (34 bp):
ATTTAAATTTAAAATAAATTTAAATTTAAAATAA
Found at i:30314758 original size:62 final size:61
Alignment explanation
Indices: 30314669--30314784 Score: 196
Period size: 62 Copynumber: 1.9 Consensus size: 61
30314659 AAGAGACCCA
30314669 AAAAAAAAAAGGAAAAAAAAGTCAAGATGAAAACCCGCAAAGGGAATTTTGAAACCCAAAG
1 AAAAAAAAAAGGAAAAAAAAGTCAAGATGAAAACCCGCAAAGGGAATTTTGAAACCCAAAG
* * *
30314730 AAAAAAAAAGGGAAAGAAAAAGTTAAGATGAAAACCCGCAAAGGGCATTTTGAAA
1 AAAAAAAAAAGGAAA-AAAAAGTCAAGATGAAAACCCGCAAAGGGAATTTTGAAA
30314785 ATCTATGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
61 14 0.27
62 37 0.73
ACGTcount: A:0.58, C:0.11, G:0.20, T:0.11
Consensus pattern (61 bp):
AAAAAAAAAAGGAAAAAAAAGTCAAGATGAAAACCCGCAAAGGGAATTTTGAAACCCAAAG
Found at i:30316029 original size:112 final size:112
Alignment explanation
Indices: 30315888--30316300 Score: 650
Period size: 111 Copynumber: 3.7 Consensus size: 112
30315878 TTGTCATTTT
* * *
30315888 TAATCTTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTCATTCATCTTACAACCTTG
1 TAATCTTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACCTTG
*
30315953 TTCAAGCATTTTTGCATCGAAATAACAGTTAGTGGACCAATGATTTG
66 TTCAAGCATTTTTGCATCGAAATAACAGTTAGTGGACCAATGATTCG
*
30316000 TAATCTTTTCATTCATACGAGCTTAGCCTCCAATAAAATTCAATTTTATCCACC-TACAACCTTG
1 TAATCTTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACCTTG
* *
30316064 TTCAAGCACTTTTGCATCGAAATAACAGTTTGTGGACCAATGATTCG
66 TTCAAGCATTTTTGCATCGAAATAACAGTTAGTGGACCAATGATTCG
* *
30316111 TAATC-TTTCATTCATACGAGCTTTGCCTCCAATAAAATTTAATCTTATCCACCTTACAACCTTG
1 TAATCTTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACCTTG
* * *
30316175 TTTAAGCATTTTTGCATCGAAATGACAGTTAGTGAACCAATGATTCG
66 TTCAAGCATTTTTGCATCGAAATAACAGTTAGTGGACCAATGATTCG
* * * *
30316222 TAATCTTTTCATTCATACGAGCTTTGTCTCCAATAAAAAATCGATTTTATCCACCTCACAACCTT
1 TAATCTTTTCATTCATACGAGCTTTGCCTCCAAT-AAAATTCAATTTTATCCACCTTACAACCTT
30316287 GATTCAAGCATTTT
65 G-TTCAAGCATTTT
30316301 CTTTAAATAT
Statistics
Matches: 275, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
110 45 0.16
111 116 0.42
112 77 0.28
113 26 0.09
114 11 0.04
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (112 bp):
TAATCTTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACCTTG
TTCAAGCATTTTTGCATCGAAATAACAGTTAGTGGACCAATGATTCG
Found at i:30316809 original size:50 final size:50
Alignment explanation
Indices: 30316745--30317127 Score: 236
Period size: 49 Copynumber: 7.7 Consensus size: 50
30316735 AGGGAACATA
* * *
30316745 AAGATATGAAGGGAAAGG-TTGAGACCGCAATGGCGAACCTAGTACCTTAG
1 AAGATATGAAGGG-AAGGATTGAGGCCGCAACGACGAACCTAGTACCTTAG
* * ** *
30316795 AAGATGTGATGGGAAGGATTGAGGCTACAACGACGAATCC-GGTA-C-TATG
1 AAGATATGAAGGGAAGGATTGAGGCCGCAACGACGAA-CCTAGTACCTTA-G
* * *
30316844 AAGATATGAAGGGAAAGG-TTGAGGTCGCAATGACGAACC-CGATACCTTAG
1 AAGATATGAAGGG-AAGGATTGAGGCCGCAACGACGAACCTAG-TACCTTAG
* * * * * * *
30316894 AATATGTGATGGGAAGGATTGAGGCCGCAACGGCGAA-TTTGATACCAT-G
1 AAGATATGAAGGGAAGGATTGAGGCCGCAACGACGAACCTAG-TACCTTAG
* ** * *
30316943 AAGATATGAAGGGAAAGG-TTGAGGCCACAACGGTGAACCCAGTACCTTAA
1 AAGATATGAAGGG-AAGGATTGAGGCCGCAACGACGAACCTAGTACCTTAG
* * ** * * * * *
30316993 AATATGTGGTGGGAAGGATTGAGGCTGCAATGACGAATCTTGTACCATAG
1 AAGATATGAAGGGAAGGATTGAGGCCGCAACGACGAACCTAGTACCTTAG
* * *
30317043 -AGATATGGAAGGAAAGG-TTGAAGCTAG-AACGACGAACCTTA-TACCTTAG
1 AAGATAT-GAAGGGAAGGATTGAGGC-CGCAACGACGAACC-TAGTACCTTAG
* **
30317092 -AGATATGAAGGGAAAGAGCGAGGCCGCAACGACGAA
1 AAGATATGAAGGGAAGGATTGAGGCCGCAACGACGAA
30317128 TCTCATACCC
Statistics
Matches: 250, Mismatches: 65, Indels: 37
0.71 0.18 0.11
Matches are distributed among these distances:
48 14 0.06
49 120 0.48
50 112 0.45
51 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.19
Consensus pattern (50 bp):
AAGATATGAAGGGAAGGATTGAGGCCGCAACGACGAACCTAGTACCTTAG
Found at i:30316916 original size:99 final size:100
Alignment explanation
Indices: 30316745--30317144 Score: 413
Period size: 99 Copynumber: 4.0 Consensus size: 100
30316735 AGGGAACATA
* * * *
30316745 AAGATATGAAGGGAAAGGTTGAGACCGCAATGGCGAA-CCTAGTACCTTAGAAGATGTGATGGGA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCTAGTACCTTAGAATATGTGATGGGA
* * *
30316809 AGGATTGAGGCTACAACGACGAATCCGGTACTATG
66 AGGATTGAGGCTGCAACGACGAATCTGGTACCATG
* * *
30316844 AAGATATGAAGGGAAAGGTTGAGGTCGCAATGACGAACCCGA-TACCTTAGAATATGTGATGGGA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCTAGTACCTTAGAATATGTGATGGGA
* * * *
30316908 AGGATTGAGGCCGCAACGGCGAATTTGATACCATG
66 AGGATTGAGGCTGCAACGACGAATCTGGTACCATG
* ** * *
30316943 AAGATATGAAGGGAAAGGTTGAGGCCACAACGGTGAACCC-AGTACCTTAAAATATGTGGTGGGA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCTAGTACCTTAGAATATGTGATGGGA
* *
30317007 AGGATTGAGGCTGCAATGACGAATCTTGTACCAT-
66 AGGATTGAGGCTGCAACGACGAATCTGGTACCATG
* * * *
30317041 AGAGATATGGAA-GGAAAGGTTGAAGCTAG-AACGACGAACCTTA-TACCTTAGAGATA--TGAA
1 A-AGATAT-GAAGGGAAAGGTTGAGGC-CGCAACGACGAACCCTAGTACCTTAGA-ATATGTGAT
* ** * ** *
30317101 GGGAAAGAGCGAGGCCGCAACGACGAATCTCATACCCTG
62 GGGAAGGATTGAGGCTGCAACGACGAATCTGGTACCATG
30317140 AAGAT
1 AAGAT
30317145 GAGGAAAAGC
Statistics
Matches: 251, Mismatches: 42, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
98 38 0.15
99 203 0.81
100 10 0.04
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (100 bp):
AAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCTAGTACCTTAGAATATGTGATGGGA
AGGATTGAGGCTGCAACGACGAATCTGGTACCATG
Found at i:30317089 original size:198 final size:197
Alignment explanation
Indices: 30316745--30317144 Score: 493
Period size: 198 Copynumber: 2.0 Consensus size: 197
30316735 AGGGAACATA
* * * *
30316745 AAGATATGAAGGGAAAGGTTGAGACCGCAATGGCGAACCTAGTACCTTAGAAGATGTGATGGGAA
1 AAGATATGAAGGGAAAGGTTGAGACCACAACGGCGAACCCAGTACCTTAAAAGATGTGATGGGAA
* * * *
30316810 GGATTGAGGCTACAACGACGAATCCGGTACTATGAAGATATGAAGGGAAAGGTTGAGGTCGCAAT
66 GGATTGAGGCTACAACGACGAATCCGGTACCATGAAGATATGAAGGGAAAGGTTGAGCTAGCAAC
* * ** * * *
30316875 GACGAACCCGATACCTTAGA-ATATGTGATGGGAAGGATTGAGGCCGCAACGGCGAATTTGATAC
131 GACGAACCCGATACCTTAGAGATA--TGAAGGGAAAGAGCGAGGCCGCAACGACGAATCTCATAC
30316939 CATG
194 CATG
* * * *
30316943 AAGATATGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCAGTACCTTAAAATATGTGGTGGGAA
1 AAGATATGAAGGGAAAGGTTGAGACCACAACGGCGAACCCAGTACCTTAAAAGATGTGATGGGAA
* * **
30317008 GGATTGAGGCTGCAATGACGAATCTTGTACCAT-AGAGATATGGAA-GGAAAGGTTGAAGCTAG-
66 GGATTGAGGCTACAACGACGAATCCGGTACCATGA-AGATAT-GAAGGGAAAGGTTG-AGCTAGC
**
30317070 AACGACGAACCTTATACCTTAGAGATATGAAGGGAAAGAGCGAGGCCGCAACGACGAATCTCATA
128 AACGACGAACCCGATACCTTAGAGATATGAAGGGAAAGAGCGAGGCCGCAACGACGAATCTCATA
*
30317135 CCCTG
193 CCATG
30317140 AAGAT
1 AAGAT
30317145 GAGGAAAAGC
Statistics
Matches: 172, Mismatches: 26, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
197 41 0.24
198 121 0.70
199 10 0.06
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (197 bp):
AAGATATGAAGGGAAAGGTTGAGACCACAACGGCGAACCCAGTACCTTAAAAGATGTGATGGGAA
GGATTGAGGCTACAACGACGAATCCGGTACCATGAAGATATGAAGGGAAAGGTTGAGCTAGCAAC
GACGAACCCGATACCTTAGAGATATGAAGGGAAAGAGCGAGGCCGCAACGACGAATCTCATACCA
TG
Found at i:30317455 original size:78 final size:79
Alignment explanation
Indices: 30317365--30318345 Score: 920
Period size: 78 Copynumber: 12.2 Consensus size: 79
30317355 AAGCTACACA
* * * *
30317365 CCAATCCCTTACCCTGATCATGAGGTAGATTGAAGACACGCCAATCTCTTACCCCGATCATGAGG
1 CCAATCTCTTACCCTAATCATGAGGCAGATTGAAGACACACCAATCTCTTACCCCGATCATGAGG
30317430 CAGATTGAAG-CAT
66 CAGATTGAAGACAT
* *
30317443 CCAATCTTTTACCCTAATCA-GAGGGTAGATTGAAGACACACCAATCTCTTACCCCGATCATGAG
1 CCAATCTCTTACCCTAATCATGA-GGCAGATTGAAGACACACCAATCTCTTACCCCGATCATGAG
30317507 GCAGATTGAAGATATCAT
65 GCAGATTGAAG--A-CAT
* * * * *
30317525 CCAATCTTTTACCTTAATCA-GAAGGTAGATTAAAGACACACCAATCTATTACCCCGATCATGAG
1 CCAATCTCTTACCCTAATCATG-AGGCAGATTGAAGACACACCAATCTCTTACCCCGATCATGAG
* * *
30317589 GCAAATTGAATACACA
65 GCAGATTGAAGACA-T
** * *
30317605 CCAATCTCTTACCCGGATCATG-GGACAGATTGAAGACAAACCAATCTCTTACCTCGATCATGAG
1 CCAATCTCTTACCCTAATCATGAGG-CAGATTGAAGACACACCAATCTCTTACCCCGATCATGAG
*
30317669 GTAGATTGAAGACATCAT
65 GCAGATTGAAG--A-CAT
* * *
30317687 CCAATCTTTTACCTTAATCA-GAAGGCAGATTGAAGACACACCAATCTCTTACCCCGATCATGGG
1 CCAATCTCTTACCCTAATCATG-AGGCAGATTGAAGACACACCAATCTCTTACCCCGATCATGAG
*
30317751 GCAGATTGAA-ACAC
65 GCAGATTGAAGACAT
* * * * *
30317765 CCAATCTATTACCTTAATCA-AAGGGCAGATTGAAGATACACCAATCTCTTACCCCGATCATGGG
1 CCAATCTCTTACCCTAATCATGA-GGCAGATTGAAGACACACCAATCTCTTACCCCGATCATGAG
30317829 GCAGATTGAAG-CAT
65 GCAGATTGAAGACAT
** * * * * * *
30317843 TTAATCTCTTACCCCAACCATGAAGCAGATTGAAGATATCATCCAATCTCTTACCTCGATCATGG
1 CCAATCTCTTACCCTAATCATGAGGCAGATTGAAGACA-CA-CCAATCTCTTACCCCGATCATGA
30317908 GGCAGATTGAAGACAT
64 GGCAGATTGAAGACAT
**
30317924 CATCTAATCTCTTACCCCGATCAT--GG--G--TGAAGACATCATCCAATCTCTTACCCCGATCA
1 C--C-AATCTCTTACCCTAATCATGAGGCAGATTGAAGACA-CA-CCAATCTCTTACCCCGATCA
30317983 TGAGGCAGATTGAAGACAT
61 TGAGGCAGATTGAAGACAT
*
30318002 CGTCAAATCTCTTACGCTAATCA-GAGGTCAGATTGAAGACACACCAATCTCTTACCCCGATCAT
1 C--C-AATCTCTTACCCTAATCATGAGG-CAGATTGAAGACACACCAATCTCTTACCCCGATCAT
*
30318066 GGGGCAGATTGAAG-CAT
62 GAGGCAGATTGAAGACAT
* * * * * * *
30318083 CTAATCTCGTACCCCAACCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCTCGATCATGG
1 CCAATCTCTTACCCTAATCATGAGGCAGATTGAAGACA-CA-CCAATCTCTTACCCCGATCATGA
*
30318148 GGCAAATTGAAGACATCAT
64 GGCAGATTGAAG--A-CAT
* * * *
30318167 CCAATCTCTTATCCC-GATCATGGGGTAGATTGAAGATATCATCCAATCTCTTACCCCGATCATG
1 CCAATCTCTTA-CCCTAATCATGAGGCAGATTGAAGACA-CA-CCAATCTCTTACCCCGATCATG
* * *
30318231 GGGTAAATTGAAGATATCAT
63 AGGCAGATTGAAG--A-CAT
* * * *
30318251 CGAATCTCTTA-CCTCGATTAT-AGGGCAGATTGAAGACATCATCCAATCTCTTGCCCCGATCAT
1 CCAATCTCTTACCCT-AATCATGA-GGCAGATTGAAGACA-CA-CCAATCTCTTACCCCGATCAT
* * *
30318314 GAGGTAGATTAAAGTCAT
62 GAGGCAGATTGAAGACAT
*
30318332 CCAATCTTTTACCC
1 CCAATCTCTTACCC
30318346 CCAAGTCAAG
Statistics
Matches: 773, Mismatches: 88, Indels: 80
0.82 0.09 0.09
Matches are distributed among these distances:
77 3 0.00
78 262 0.34
79 15 0.02
80 127 0.16
81 21 0.03
82 173 0.22
83 7 0.01
84 162 0.21
85 3 0.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (79 bp):
CCAATCTCTTACCCTAATCATGAGGCAGATTGAAGACACACCAATCTCTTACCCCGATCATGAGG
CAGATTGAAGACAT
Found at i:30317537 original size:42 final size:42
Alignment explanation
Indices: 30317365--30318346 Score: 935
Period size: 42 Copynumber: 24.4 Consensus size: 42
30317355 AAGCTACACA
* * * *
30317365 CCAATCCCTTACCCTGATCATGAGGTAGATTGAAGACA-C-G
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
30317405 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAG----CAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* ** *
30317443 CCAATCTTTTACCCTAATCA-GAGGGTAGATTGAAGACA-CA-
1 CCAATCTCTTACCCCGATCATGA-GGCAGATTGAAGACATCAT
*
30317483 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGATATCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* *** * *
30317525 CCAATCTTTTACCTTAATCA-GAAGGTAGATTAAAGACA-CA-
1 CCAATCTCTTACCCCGATCATG-AGGCAGATTGAAGACATCAT
* * *
30317565 CCAATCTATTACCCCGATCATGAGGCAAATTGAATACA-CA-
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* *
30317605 CCAATCTCTTACCCGGATCATG-GGACAGATTGAAGACA--AA
1 CCAATCTCTTACCCCGATCATGAGG-CAGATTGAAGACATCAT
* *
30317645 CCAATCTCTTACCTCGATCATGAGGTAGATTGAAGACATCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* ***
30317687 CCAATCTTTTACCTTAATCA-GAAGGCAGATTGAAGACA-CA-
1 CCAATCTCTTACCCCGATCATG-AGGCAGATTGAAGACATCAT
*
30317727 CCAATCTCTTACCCCGATCATGGGGCAGATTGAA-ACA-C--
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* *** * *
30317765 CCAATCTATTACCTTAATCA-AAGGGCAGATTGAAGATA-CA-
1 CCAATCTCTTACCCCGATCATGA-GGCAGATTGAAGACATCAT
*
30317805 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAG-CAT--T
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* * * * *
30317844 -TAATCTCTTACCCCAACCATGAAGCAGATTGAAGATATCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* *
30317885 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
*
30317927 CTAATCTCTTACCCCGATCAT--GG--G--TGAAGACATCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
*
30317963 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCGT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* * **
30318005 CAAATCTCTTACGCTAATCA-GAGGTCAGATTGAAGACA-CA-
1 CCAATCTCTTACCCCGATCATGAGG-CAGATTGAAGACATCAT
*
30318045 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAG-CATC-T
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* * * *
30318085 --AATCTCGTACCCCAACCATGGGGCAGATTGAAGACATCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* * *
30318125 CCAATCTCTTACCTCGATCATGGGGCAAATTGAAGACATCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* * * *
30318167 CCAATCTCTTATCCCGATCATGGGGTAGATTGAAGATATCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* * * *
30318209 CCAATCTCTTACCCCGATCATGGGGTAAATTGAAGATATCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
* * *
30318251 CGAATCTCTTACCTCGATTAT-AGGGCAGATTGAAGACATCAT
1 CCAATCTCTTACCCCGATCATGA-GGCAGATTGAAGACATCAT
* * *
30318293 CCAATCTCTTGCCCCGATCATGAGGTAGATT-AA-A-GTCAT
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
*
30318332 CCAATCTTTTACCCC
1 CCAATCTCTTACCCC
30318347 CAAGTCAAGA
Statistics
Matches: 783, Mismatches: 116, Indels: 87
0.79 0.12 0.09
Matches are distributed among these distances:
36 32 0.04
37 3 0.00
38 117 0.15
39 36 0.05
40 242 0.31
41 27 0.03
42 325 0.42
43 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
Found at i:30317667 original size:162 final size:160
Alignment explanation
Indices: 30317365--30318344 Score: 969
Period size: 162 Copynumber: 6.1 Consensus size: 160
30317355 AAGCTACACA
* * * *
30317365 CCAATCCCTTACCCTGATCATG-AGGTAGATTGAAGACACGCCAATCTCTTACCCCGATCATGAG
1 CCAATCTCTTA-CCTAATCA-GAAGGTAGATTGAAGACACACCAATCTCTTACCCCGATCATGGG
* * * * * *
30317429 GCAGATTGAAGCA-TCCAATCTTTTACCCTAATCAGAGGGTAGATTGAAGACAC-ACCAATCTCT
64 GCAGATTGAAACACACCAATCTCTTACCCCAATCA-TGGGCAGATTGAAGACACAACCAATCTCT
*
30317492 TACCCCGATCATGAGGCAGATTGAAGATATCAT
128 TACCCCGATCATGAGGCAGATTGAAGACATCAT
* * * *
30317525 CCAATCTTTTACCTTAATCAGAAGGTAGATTAAAGACACACCAATCTATTACCCCGATCATGAGG
1 CCAATCTCTTACC-TAATCAGAAGGTAGATTGAAGACACACCAATCTCTTACCCCGATCATGGGG
* **
30317590 CAAATTGAATACACACCAATCTCTTACCCGGATCATGGGACAGATTGAAGACA-AACCAATCTCT
65 CAGATTGAA-ACACACCAATCTCTTACCCCAATCATGGG-CAGATTGAAGACACAACCAATCTCT
* *
30317654 TACCTCGATCATGAGGTAGATTGAAGACATCAT
128 TACCCCGATCATGAGGCAGATTGAAGACATCAT
* *
30317687 CCAATCTTTTACCTTAATCAGAAGGCAGATTGAAGACACACCAATCTCTTACCCCGATCATGGGG
1 CCAATCTCTTACC-TAATCAGAAGGTAGATTGAAGACACACCAATCTCTTACCCCGATCATGGGG
* ** * *
30317752 CAGATTGAAACAC-CCAATCTATTACCTTAATCAAAGGGCAGATTGAAGATAC-ACCAATCTCTT
65 CAGATTGAAACACACCAATCTCTTACCCCAATC-ATGGGCAGATTGAAGACACAACCAATCTCTT
*
30317815 ACCCCGATCATGGGGCAGATTGAAG-CAT--T
129 ACCCCGATCATGAGGCAGATTGAAGACATCAT
* * * * * *
30317844 -TAATCTCTTACCCCAACCATGAA-GCAGATTGAAGATATCATCCAATCTCTTACCTCGATCATG
1 CCAATCTCTTA-CCTAATCA-GAAGGTAGATTGAAGACA-CA-CCAATCTCTTACCCCGATCATG
* * *
30317907 GGGCAGATTGAAGACATCATCTAATCTCTTACCCCGATCAT-GG--G--TGAAGACATCATCCAA
62 GGGCAGATTGAA-ACA-CA-CCAATCTCTTACCCCAATCATGGGCAGATTGAAGACA-CAACCAA
*
30317967 TCTCTTACCCCGATCATGAGGCAGATTGAAGACATCGT
123 TCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
*
30318005 CAAATCTCTTACGCTAATCAG-AGGTCAGATTGAAGACACACCAATCTCTTACCCCGATCATGGG
1 CCAATCTCTTAC-CTAATCAGAAGGT-AGATTGAAGACACACCAATCTCTTACCCCGATCATGGG
* * * * * *
30318069 GCAGATTGAAGCA-TCTAATCTCGTACCCCAACCATGGGGCAGATTGAAGACATCATCCAATCTC
64 GCAGATTGAAACACACCAATCTCTTACCCCAATCAT-GGGCAGATTGAAGACA-CAACCAATCTC
* * *
30318133 TTACCTCGATCATGGGGCAAATTGAAGACATCAT
127 TTACCCCGATCATGAGGCAGATTGAAGACATCAT
** * *
30318167 CCAATCTCTTATCCCGATCATG-GGGTAGATTGAAGATATCATCCAATCTCTTACCCCGATCATG
1 CCAATCTCTTA-CCTAATCA-GAAGGTAGATTGAAGACA-CA-CCAATCTCTTACCCCGATCATG
* * * * * * * *
30318231 GGGTAAATTGAAGATATCATCGAATCTCTTACCTCGATTATAGGGCAGATTGAAGACATCATCCA
62 GGGCAGATTGAA-ACA-CA-CCAATCTCTTACCCCAATCAT-GGGCAGATTGAAGACA-CAACCA
* * *
30318296 ATCTCTTGCCCCGATCATGAGGTAGATT-AA-A-GTCAT
122 ATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
*
30318332 CCAATCTTTTACC
1 CCAATCTCTTACC
30318345 CCCAAGTCAA
Statistics
Matches: 696, Mismatches: 85, Indels: 74
0.81 0.10 0.09
Matches are distributed among these distances:
156 50 0.07
157 9 0.01
158 70 0.10
159 14 0.02
160 160 0.23
161 20 0.03
162 253 0.36
163 7 0.01
164 34 0.05
165 15 0.02
166 1 0.00
167 2 0.00
168 61 0.09
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (160 bp):
CCAATCTCTTACCTAATCAGAAGGTAGATTGAAGACACACCAATCTCTTACCCCGATCATGGGGC
AGATTGAAACACACCAATCTCTTACCCCAATCATGGGCAGATTGAAGACACAACCAATCTCTTAC
CCCGATCATGAGGCAGATTGAAGACATCAT
Found at i:30317889 original size:120 final size:122
Alignment explanation
Indices: 30317365--30318346 Score: 915
Period size: 120 Copynumber: 8.1 Consensus size: 122
30317355 AAGCTACACA
* * * * * *
30317365 CCAATCCCTTACCCTGATCATGAGGTAGATTGAAGACA-C-GCCAATCTCTTACCCCGATC-ATG
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCTCGATCAAAG
* ** * *
30317427 AGGCAGATTGAAG----CATCCAATCTTTTACCCTAATCA-GAGGGTAGATTGAAGACACA
66 -GGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAG-CA-T
* * **
30317483 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGATATCATCCAATCTTTTACCTTAATCAGAA
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCTCGATCA-AA
* * * * * * *
30317548 -GGTAGATTAAAGACA-CA-CCAATCTATTACCCCGATCATGAGGCAAATTGAATACACA
65 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-GCA-T
* * *
30317605 CCAATCTCTTACCCGGATCATG-GGACAGATTGAAGACA--AACCAATCTCTTACCTCGATC-AT
1 CCAATCTCTTACCCCGATCATGAGG-CAGATTGAAGACATCATCCAATCTCTTACCTCGATCAAA
* * *** * *
30317666 GAGGTAGATTGAAGACATCATCCAATCTTTTACCTTAATCA-GAAGGCAGATTGAAGACACA
65 G-GGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAG-CA-T
* * **
30317727 CCAATCTCTTACCCCGATCATGGGGCAGATTGAA-ACA-C--CCAATCTATTACCTTAATCAAAG
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCTCGATCAAAG
*
30317788 GGCAGATTGAAGATA-CA-CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCAT
66 GGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCAT
** * * * * **
30317843 TTAATCTCTTACCCCAACCATGAAGCAGATTGAAGATATCATCCAATCTCTTACCTCGATCATGG
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCTCGATCAAAG
* *
30317908 GGCAGATTGAAGACATCATCTAATCTCTTACCCCGATCATGGGTG-A-A--GACATCAT
66 GGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGG-GCAGATTGA-AGCAT
* * * *
30317963 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCGTCAAATCTCTTACGCT-AATCAGA
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTAC-CTCGATCAAA
*
30318027 GGTCAGATTGAAGACA-CA-CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCAT
65 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCAT
* * * * * **
30318083 CTAATCTCGTACCCCAACCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCTCGATCATGG
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCTCGATCAAAG
* * *
30318148 GGCAAATTGAAGACATCATCCAATCTCTTATCCCGATCATGGGGTAGATTGAAGATATCAT
66 GGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG----CAT
* * * * * * *
30318209 CCAATCTCTTACCCCGATCATGGGGTAAATTGAAGATATCATCGAATCTCTTACCTCGATTATAG
1 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCTCGATCAAAG
* * * *
30318274 GGCAGATTGAAGACATCATCCAATCTCTTGCCCCGATCATGAGGTAGATTAAAGTCAT
66 GGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG-CAT
*
30318332 CCAATCTTTTACCCC
1 CCAATCTCTTACCCC
30318347 CAAGTCAAGA
Statistics
Matches: 719, Mismatches: 105, Indels: 75
0.80 0.12 0.08
Matches are distributed among these distances:
116 28 0.04
117 5 0.01
118 88 0.12
119 11 0.02
120 255 0.35
121 19 0.03
122 182 0.25
123 24 0.03
126 107 0.15
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (122 bp):
CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCTCGATCAAAG
GGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCAT
Found at i:30322333 original size:24 final size:24
Alignment explanation
Indices: 30322306--30322354 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
30322296 AACTTAAACT
* *
30322306 AATA-AATACAAAATTAGGCTCAAA
1 AATATAATA-AAAATTAAGCCCAAA
30322330 AATATAATAAAAATTAAGCCCAAA
1 AATATAATAAAAATTAAGCCCAAA
30322354 A
1 A
30322355 CCCGAACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.20
Consensus pattern (24 bp):
AATATAATAAAAATTAAGCCCAAA
Found at i:30326278 original size:7 final size:7
Alignment explanation
Indices: 30326266--30326299 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
30326256 TAGAAACAGG
30326266 TTGGAAT
1 TTGGAAT
30326273 TTGGAAT
1 TTGGAAT
30326280 TTGGAAT
1 TTGGAAT
30326287 TTGGAAT
1 TTGGAAT
30326294 TTGGAA
1 TTGGAA
30326300 ATGTTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (7 bp):
TTGGAAT
Found at i:30329933 original size:21 final size:21
Alignment explanation
Indices: 30329907--30329947 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30329897 GAGGTTAGTC
*
30329907 AATCAACATCAATCAACGTTT
1 AATCAACACCAATCAACGTTT
* *
30329928 AATCAATACCGATCAACGTT
1 AATCAACACCAATCAACGTT
30329948 ATGTTAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.27
Consensus pattern (21 bp):
AATCAACACCAATCAACGTTT
Found at i:30331507 original size:27 final size:29
Alignment explanation
Indices: 30331455--30331508 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
30331445 GATAAATTGC
30331455 CACATATTCGCCATAAAATAGCCACATAT
1 CACATATTCGCCATAAAATAGCCACATAT
*
30331484 CACATATTTGCCA-AAAAT-GCCACAT
1 CACATATTCGCCATAAAATAGCCACAT
30331509 CTTCCTCCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.29
28 5 0.21
29 12 0.50
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (29 bp):
CACATATTCGCCATAAAATAGCCACATAT
Found at i:30339647 original size:19 final size:19
Alignment explanation
Indices: 30339625--30339661 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30339615 TAAATTTTGA
*
30339625 AGTTTATTCAATTTAGTCC
1 AGTTTATACAATTTAGTCC
*
30339644 AGTTTCTACAATTTAGTC
1 AGTTTATACAATTTAGTC
30339662 TTTGTACCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (19 bp):
AGTTTATACAATTTAGTCC
Found at i:30341885 original size:15 final size:16
Alignment explanation
Indices: 30341867--30341896 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30341857 AATATATTTT
30341867 TAAAAAAT-TAAAATC
1 TAAAAAATCTAAAATC
30341882 TAAAAAATCTAAAAT
1 TAAAAAATCTAAAAT
30341897 TCAATGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAAAATCTAAAATC
Found at i:30342328 original size:18 final size:18
Alignment explanation
Indices: 30342282--30342336 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
30342272 CATACTTCAT
* *
30342282 ACAACATATGTTCTCATA
1 ACAACATAGGTTCACATA
*
30342300 ACACCCA-AGGTTCACATA
1 ACA-ACATAGGTTCACATA
*
30342318 ACAACATAGGTTCGCATA
1 ACAACATAGGTTCACATA
30342336 A
1 A
30342337 ATCTGATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 2 0.07
18 26 0.87
19 2 0.07
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.24
Consensus pattern (18 bp):
ACAACATAGGTTCACATA
Found at i:30349019 original size:3 final size:3
Alignment explanation
Indices: 30349011--30349056 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
30349001 CATAAAATTG
* *
30349011 ATC ATC ATC ATC ATC ATC ACC ATC ATC ATC ATC ATC ATA ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
30349057 AAGTCATTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (3 bp):
ATC
Found at i:30369324 original size:30 final size:30
Alignment explanation
Indices: 30369266--30369331 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
30369256 TCCGGGCGGG
* *
30369266 GTTGAGGTTATGGTTCTAGTTCTAGTTCTA
1 GTTGTGGTTATGGTTATAGTTCTAGTTCTA
* * * *
30369296 GTTGTGGTTATGGTTATGGTTGTGGTTCTT
1 GTTGTGGTTATGGTTATAGTTCTAGTTCTA
30369326 GTTGTG
1 GTTGTG
30369332 ATACTAGTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.11, C:0.06, G:0.33, T:0.50
Consensus pattern (30 bp):
GTTGTGGTTATGGTTATAGTTCTAGTTCTA
Found at i:30371201 original size:19 final size:21
Alignment explanation
Indices: 30371154--30371225 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 21
30371144 TCAGATATTC
* *
30371154 AAATAAAAAGTATACAAAAT-
1 AAATAAAAATTATAAAAAATG
* *
30371174 TAAT-TAAATTAT-AAAAATG
1 AAATAAAAATTATAAAAAATG
30371193 AAAT-AAAA-TATTAAAAAATG
1 AAATAAAAATTA-TAAAAAATG
30371213 AAATAAAAATTAT
1 AAATAAAAATTAT
30371226 TAACAAAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
18 7 0.17
19 13 0.32
20 14 0.34
21 5 0.12
22 2 0.05
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (21 bp):
AAATAAAAATTATAAAAAATG
Found at i:30371211 original size:20 final size:20
Alignment explanation
Indices: 30371179--30371225 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
30371169 AAAATTAATT
30371179 AAATTATAAAAATGAAATAA
1 AAATTATAAAAATGAAATAA
30371199 AATATTA-AAAAATGAAATAA
1 AA-ATTATAAAAATGAAATAA
30371219 AAATTAT
1 AAATTAT
30371226 TAACAAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.16
20 17 0.68
21 4 0.16
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
AAATTATAAAAATGAAATAA
Found at i:30372402 original size:31 final size:32
Alignment explanation
Indices: 30372364--30372425 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
30372354 ATACCTTTTA
*
30372364 AATAATTTTAATG-ATTTTT-ATTTTTAAAAAT
1 AATAATTTT-ATGAATTTTTAAATTTTAAAAAT
*
30372395 AATAATTTTTTGAATTTTTAAATTTTAAAAA
1 AATAATTTTATGAATTTTTAAATTTTAAAAA
30372426 ATTAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 2 0.07
31 15 0.56
32 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (32 bp):
AATAATTTTATGAATTTTTAAATTTTAAAAAT
Found at i:30379095 original size:11 final size:10
Alignment explanation
Indices: 30379045--30379117 Score: 51
Period size: 10 Copynumber: 7.1 Consensus size: 10
30379035 TAAAAATTAT
30379045 TAATGTTTTTAA
1 TAAT-TTTTT-A
*
30379057 TTATTTTTTA
1 TAATTTTTTA
* *
30379067 TAATGTTTCA
1 TAATTTTTTA
30379077 TAAATTTTTTA
1 T-AATTTTTTA
*
30379088 TAATTTTTAA
1 TAATTTTTTA
*
30379098 T-ATTCTTGTA
1 TAATT-TTTTA
30379108 -AATTTTTTA
1 TAATTTTTTA
30379117 T
1 T
30379118 TTTAAAATAT
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
9 7 0.15
10 24 0.51
11 13 0.28
12 3 0.06
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:30381276 original size:7 final size:8
Alignment explanation
Indices: 30381259--30381284 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
30381249 GTGCAACATA
30381259 TTTTAATT
1 TTTTAATT
30381267 TTTTAATT
1 TTTTAATT
30381275 TTTTAATT
1 TTTTAATT
30381283 TT
1 TT
30381285 AGGTTGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTAATT
Found at i:30382757 original size:11 final size:11
Alignment explanation
Indices: 30382734--30382776 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
30382724 ACAAAATCTT
30382734 AAAT-CTCATA
1 AAATACTCATA
*
30382744 AAATACTCACA
1 AAATACTCATA
*
30382755 AAATAGT-ATA
1 AAATACTCATA
30382765 AAATACTCATA
1 AAATACTCATA
30382776 A
1 A
30382777 TAATTATCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 12 0.44
11 15 0.56
ACGTcount: A:0.56, C:0.16, G:0.02, T:0.26
Consensus pattern (11 bp):
AAATACTCATA
Found at i:30387401 original size:31 final size:32
Alignment explanation
Indices: 30387365--30387444 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 32
30387355 TTTTTGGTCC
*
30387365 AATTTGGTACTC-GAACTTGACACTTTTTTCT
1 AATTTGGTACTCTAAACTTGACACTTTTTTCT
*
30387396 AATTTGGTAC-CTAAACTTGACACTTTTTTTT
1 AATTTGGTACTCTAAACTTGACACTTTTTTCT
*
30387427 AAGTTGGTACT-TAAACTT
1 AATTTGGTACTCTAAACTT
30387445 TTTGGGGTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 1 0.02
31 43 0.98
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.45
Consensus pattern (32 bp):
AATTTGGTACTCTAAACTTGACACTTTTTTCT
Found at i:30387472 original size:90 final size:90
Alignment explanation
Indices: 30387319--30387499 Score: 263
Period size: 90 Copynumber: 2.0 Consensus size: 90
30387309 TTTGTACTTG
* * * ** * *
30387319 AACTTGACACTTTTTCCTAATTTGGTATTTAAATTTTTTTTGGTCCAATTTGGTACTCGAACTTG
1 AACTTGACACTTTTTCCTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTGATACTCGAACTTC
30387384 ACACTTTTTTCTAATTTGGTACCTA
66 ACACTTTTTTCTAATTTGGTACCTA
** *
30387409 AACTTGACACTTTTTTTTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTGATACTTGAACTTC
1 AACTTGACACTTTTTCCTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTGATACTCGAACTTC
*
30387474 ACTCTTTTTTCTAATTTGGTACCTA
66 ACACTTTTTTCTAATTTGGTACCTA
30387499 A
1 A
30387500 TTGTTTTAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.47
Consensus pattern (90 bp):
AACTTGACACTTTTTCCTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTGATACTCGAACTTC
ACACTTTTTTCTAATTTGGTACCTA
Found at i:30387756 original size:61 final size:61
Alignment explanation
Indices: 30387647--30387837 Score: 137
Period size: 62 Copynumber: 3.1 Consensus size: 61
30387637 ATAAATTTAG
** * * *
30387647 GTACCAAATTGAATCTAAAAAAAAAGCTTAAGAATCAAATTCGGAAAAAA-TACCAAGTTCAA
1 GTACCAAATTGGGTC-AAAAAAAAAGCTTAAGAATCAAATTAGAAAAAAAGTACCAAATT-AA
* ** *
30387709 GTACCAAATTGGGTCAAAAAAAAAG-TTTAG-ATACTAAATTAGAAAAAAAGTGTCAAATTTA
1 GTACCAAATTGGGTCAAAAAAAAAGCTTAAGAAT-C-AAATTAGAAAAAAAGTACCAAATTAA
* * * *
30387770 GATACCAAATTGGG--ACAAAAAAA-TTTAA-ATATCAAATTA-AGAAAAAGTATCAAATTCAA
1 G-TACCAAATTGGGTCAAAAAAAAAGCTTAAGA-ATCAAATTAGAAAAAAAGTACCAAATT-AA
*
30387829 ATACCAAAT
1 GTACCAAAT
30387838 ATTATATTAA
Statistics
Matches: 106, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
58 23 0.22
59 9 0.08
60 17 0.16
61 26 0.25
62 31 0.29
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (61 bp):
GTACCAAATTGGGTCAAAAAAAAAGCTTAAGAATCAAATTAGAAAAAAAGTACCAAATTAA
Found at i:30387824 original size:58 final size:61
Alignment explanation
Indices: 30387691--30387837 Score: 160
Period size: 58 Copynumber: 2.5 Consensus size: 61
30387681 TCAAATTCGG
* * * *
30387691 AAAAAA-TACCAAGTTCAAGTACCAAATTGGGTCAAAAAAAAAGTTTAGATACTAAATTAGA
1 AAAAAAGTATCAAATTCAAATACCAAATTGGG-CAAAAAAAAAGTTTAAATACTAAATTAGA
* * * *
30387752 AAAAAAGTGTCAAATTTAGATACCAAATTGGG-ACAAAAAAA-TTTAAATA-TCAAATTA-A
1 AAAAAAGTATCAAATTCAAATACCAAATTGGGCAAAAAAAAAGTTTAAATACT-AAATTAGA
*
30387810 GAAAAAGTATCAAATTCAAATACCAAAT
1 AAAAAAGTATCAAATTCAAATACCAAAT
30387838 ATTATATTAA
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
58 26 0.36
59 13 0.18
60 8 0.11
61 6 0.08
62 19 0.26
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (61 bp):
AAAAAAGTATCAAATTCAAATACCAAATTGGGCAAAAAAAAAGTTTAAATACTAAATTAGA
Found at i:30390426 original size:30 final size:29
Alignment explanation
Indices: 30390387--30390616 Score: 187
Period size: 30 Copynumber: 7.8 Consensus size: 29
30390377 ACCTCAAATA
* *
30390387 TTTCCAAAATTATATTTTAACCCCTAAACT
1 TTTCTAAAATTACATTTTAA-CCCTAAACT
* * *
30390417 TTTTTAAAATTATATTTTGACCCCTCAAACT
1 TTTCTAAAATTACATTTT-AACCCT-AAACT
* * * *
30390448 TTCCTAAAATCACATGTTGACCCTAAAACT
1 TTTCTAAAATTACATTTTAACCCT-AAACT
* * * *
30390478 TTTCCAAAATTACA-TTTGACACTCGAA-T
1 TTTCTAAAATTACATTTTAACCCT-AAACT
* *
30390506 TTATCCAAAATTACATTTTGACACCTAAA-T
1 TT-TCTAAAATTACATTTTAAC-CCTAAACT
*
30390536 TTCTTTAAAATTACATTTTAACCCTAAACT
1 TT-TCTAAAATTACATTTTAACCCTAAACT
* * *
30390566 TTCCTAAAATTACATCTTAACCTTAAACT
1 TTTCTAAAATTACATTTTAACCCTAAACT
*
30390595 TTTCCAAAATTACATTTTAACC
1 TTTCTAAAATTACATTTTAACC
30390617 TCGAATTTCC
Statistics
Matches: 163, Mismatches: 31, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
28 3 0.02
29 69 0.42
30 70 0.43
31 21 0.13
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.39
Consensus pattern (29 bp):
TTTCTAAAATTACATTTTAACCCTAAACT
Found at i:30390546 original size:59 final size:56
Alignment explanation
Indices: 30390373--30390611 Score: 194
Period size: 59 Copynumber: 4.1 Consensus size: 56
30390363 AAAATCATGT
* * *
30390373 TTTGACCTCAAATATTTCCAAAATTATATTTTAACCCCTAAACTTTTTTAAAATTATA
1 TTTGACCTCAAAT-TTTCCAAAATTACATTTTGA-CCCTAAACTTTTTTAAAATTACA
* * * **
30390431 TTTTGACCCCTCAAACTTTCCTAAAATCACATGTTGACCCTAAAACTTTTCCAAAATTACA
1 -TTTGA--CCTCAAATTTTCC-AAAATTACATTTTGACCCT-AAACTTTTTTAAAATTACA
*
30390492 TTTGACACTCGAATTTATCCAAAATTACATTTTGACACCTAAA-TTTCTTTAAAATTACA
1 TTTGAC-CTCAAATTT-TCCAAAATTACATTTTGAC-CCTAAACTTT-TTTAAAATTACA
* * * * * **
30390551 TTTTAACC-CTAAACTTTCCTAAAATTACATCTTAACCTTAAACTTTTCCAAAATTACA
1 -TTTGACCTC-AAATTTTCC-AAAATTACATTTTGACCCTAAACTTTTTTAAAATTACA
30390609 TTT
1 TTT
30390612 TAACCTCGAA
Statistics
Matches: 146, Mismatches: 22, Indels: 26
0.75 0.11 0.13
Matches are distributed among these distances:
57 3 0.02
58 23 0.16
59 61 0.42
60 25 0.17
61 34 0.23
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (56 bp):
TTTGACCTCAAATTTTCCAAAATTACATTTTGACCCTAAACTTTTTTAAAATTACA
Found at i:30396605 original size:17 final size:17
Alignment explanation
Indices: 30396561--30396606 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
30396551 AAAGGGTTTA
* *
30396561 AATATATTTTGATTTTG
1 AATATATTTTAAATTTG
* *
30396578 AATCTAATTTAAATTTG
1 AATATATTTTAAATTTG
30396595 AATATATTTTAA
1 AATATATTTTAA
30396607 TTTTAATTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (17 bp):
AATATATTTTAAATTTG
Found at i:30396971 original size:27 final size:28
Alignment explanation
Indices: 30396916--30396972 Score: 71
Period size: 31 Copynumber: 2.0 Consensus size: 28
30396906 TTATGATAAG
*
30396916 TATGAAAGATATTTATATTAATTTGATTAAA
1 TATGAAAGATATTTAAATTAA--T-ATTAAA
30396947 TATGAAAGATATTTAAATTAA-ATTAA
1 TATGAAAGATATTTAAATTAATATTAA
30396973 TAAATACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 5 0.20
31 20 0.80
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (28 bp):
TATGAAAGATATTTAAATTAATATTAAA
Found at i:30401910 original size:3 final size:3
Alignment explanation
Indices: 30401904--30401943 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
30401894 CATCATCATC
30401904 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30401944 AATTACTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30405924 original size:21 final size:22
Alignment explanation
Indices: 30405891--30405931 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
30405881 CCAGACATTC
30405891 ATTTATGGTTTTAT-ATCAAGA
1 ATTTATGGTTTTATGATCAAGA
30405912 ATTTA-GGTCTTTATGATCAA
1 ATTTATGGT-TTTATGATCAA
30405932 CTCAATGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 10 0.56
22 5 0.28
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (22 bp):
ATTTATGGTTTTATGATCAAGA
Found at i:30407570 original size:51 final size:51
Alignment explanation
Indices: 30407512--30407609 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
30407502 ATAAAAAAAT
30407512 TAAATTTATTATTATACTAAATAAAAAAATCACCATTAATAATTTAAAAGA
1 TAAATTTATTATTATACTAAATAAAAAAATCACCATTAATAATTTAAAAGA
* *
30407563 TAAATTTATTATTATATTAAATAAAAAAATCATCATTAATAATTTAA
1 TAAATTTATTATTATACTAAATAAAAAAATCACCATTAATAATTTAA
30407610 CGAAGAAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (51 bp):
TAAATTTATTATTATACTAAATAAAAAAATCACCATTAATAATTTAAAAGA
Found at i:30407600 original size:24 final size:24
Alignment explanation
Indices: 30407522--30407600 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
30407512 TAAATTTATT
* *
30407522 ATTATACTAAATAAAAAAATCACC
1 ATTATATTAAATAAAAAAATCATC
* * * *
30407546 ATTAATAATTTAAA-AGATAAATTTATT
1 ATT-AT-A-TTAAATA-AAAAAATCATC
30407573 ATTATATTAAATAAAAAAATCATC
1 ATTATATTAAATAAAAAAATCATC
30407597 ATTA
1 ATTA
30407601 ATAATTTAAC
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
24 19 0.47
25 4 0.10
26 4 0.10
27 13 0.32
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.35
Consensus pattern (24 bp):
ATTATATTAAATAAAAAAATCATC
Found at i:30407634 original size:50 final size:50
Alignment explanation
Indices: 30407529--30407634 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 50
30407519 ATTATTATAC
* * **
30407529 TAAATAAAAAAATCACCATTAATAATTTAAAAGATAAATTTATTATTATAT
1 TAAATAAAAAAATCACCATTAATAATTTAAAAGA-AAATTGATCAAAATAT
*
30407580 TAAATAAAAAAATCATCATTAATAATTTAACGAAG-AAA-TGATCAAAATAT
1 TAAATAAAAAAATCACCATTAATAATTTAA--AAGAAAATTGATCAAAATAT
30407630 TAAAT
1 TAAAT
30407635 TTTAATAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
50 13 0.27
51 32 0.67
53 3 0.06
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (50 bp):
TAAATAAAAAAATCACCATTAATAATTTAAAAGAAAATTGATCAAAATAT
Found at i:30408359 original size:43 final size:43
Alignment explanation
Indices: 30408284--30408384 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
30408274 AATCTTGAAG
* * * *
30408284 TTTCAACTATAGTCTATTTGGATCACTTTAGGATTAGTTTATT
1 TTTCAATTTTAGTTTATTTGGATCACTTTAGGATTAGATTATT
* *
30408327 TTTTAATTTTAGTTTATTTGGATTACTTTAGGATTAGATTATT
1 TTTCAATTTTAGTTTATTTGGATCACTTTAGGATTAGATTATT
30408370 TTTCAATTTTAGTTT
1 TTTCAATTTTAGTTT
30408385 GGCCAAATCT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.25, C:0.07, G:0.13, T:0.55
Consensus pattern (43 bp):
TTTCAATTTTAGTTTATTTGGATCACTTTAGGATTAGATTATT
Found at i:30409258 original size:17 final size:17
Alignment explanation
Indices: 30409238--30409270 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30409228 CGAAAAAGTG
30409238 GAAAAAATAAA-AAAAAC
1 GAAAAAA-AAAGAAAAAC
30409255 GAAAAAAAAAGAAAAA
1 GAAAAAAAAAGAAAAA
30409271 TAAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (17 bp):
GAAAAAAAAAGAAAAAC
Found at i:30411193 original size:11 final size:11
Alignment explanation
Indices: 30411179--30411221 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
30411169 CCAAACCCAA
30411179 ACCGTTGACCG
1 ACCGTTGACCG
*
30411190 ACCGTTGACTG
1 ACCGTTGACCG
**
30411201 AGTGTTGACCG
1 ACCGTTGACCG
*
30411212 ATCGTTGACC
1 ACCGTTGACC
30411222 ATTGACTTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.26
Consensus pattern (11 bp):
ACCGTTGACCG
Found at i:30412466 original size:12 final size:13
Alignment explanation
Indices: 30412405--30412471 Score: 54
Period size: 12 Copynumber: 5.4 Consensus size: 13
30412395 TTATTTTGAG
*
30412405 ATATTAAATATGTT
1 ATATTATATAT-TT
30412419 AT-TT-TAT-TTT
1 ATATTATATATTT
* *
30412429 A-ATTATAGACTTA
1 ATATTATATA-TTT
30412442 ATATTATATATTT
1 ATATTATATATTT
30412455 ATATTA-ATATTT
1 ATATTATATATTT
30412467 ATATT
1 ATATT
30412472 TGTAAATGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
10 5 0.12
11 3 0.07
12 13 0.30
13 13 0.30
14 9 0.21
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (13 bp):
ATATTATATATTT
Found at i:30419572 original size:12 final size:13
Alignment explanation
Indices: 30419511--30419577 Score: 54
Period size: 12 Copynumber: 5.4 Consensus size: 13
30419501 TTATTTTGAG
*
30419511 ATATTAAATATGTT
1 ATATTATATAT-TT
30419525 AT-TT-TAT-TTT
1 ATATTATATATTT
* *
30419535 A-ATTATAGACTTA
1 ATATTATATA-TTT
30419548 ATATTATATATTT
1 ATATTATATATTT
30419561 ATATTA-ATATTT
1 ATATTATATATTT
30419573 ATATT
1 ATATT
30419578 TGTAAATGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
10 5 0.12
11 3 0.07
12 13 0.30
13 13 0.30
14 9 0.21
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (13 bp):
ATATTATATATTT
Found at i:30421625 original size:5 final size:5
Alignment explanation
Indices: 30421617--30421655 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
30421607 GTTGGTGAAG
*
30421617 AAAAT AAAAT AAACA- AATAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAA
30421656 ACATAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 1 0.03
5 28 0.93
6 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:30425203 original size:25 final size:25
Alignment explanation
Indices: 30425169--30425218 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
30425159 TAACAATCTT
30425169 AACGAATTAACAGCTGAATCAAACA
1 AACGAATTAACAGCTGAATCAAACA
30425194 AACGAATTAACAGCTGAATCAAACA
1 AACGAATTAACAGCTGAATCAAACA
30425219 TACTCATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.20, G:0.12, T:0.16
Consensus pattern (25 bp):
AACGAATTAACAGCTGAATCAAACA
Found at i:30426962 original size:30 final size:29
Alignment explanation
Indices: 30426926--30427135 Score: 151
Period size: 30 Copynumber: 7.1 Consensus size: 29
30426916 TAAAAGAACT
*
30426926 CTTAAACTTTCTTAAAATTATATTTTGACC
1 CTTAAACTTTCTTAAAATTACATTTT-ACC
***
30426956 CTTAAACTTT-TTCAAAATTTTGTTTTAACC
1 CTTAAACTTTCTT-AAAATTACATTTT-ACC
* *
30426986 CCTAAACTTTCTTAAAATTACATTTTTATC
1 CTTAAACTTTCTTAAAATTACA-TTTTACC
* * * * *
30427016 CTCATACTTT-TCCAAAATTACATTATAAC
1 CTTAAACTTTCT-TAAAATTACATTTTACC
30427045 CTCTAAACTTTCTTAAAATTACATTTTGATCC
1 CT-TAAACTTTCTTAAAATTACATTTT-A-CC
* *
30427077 C-TAAAC-TTC-CAAAATTACATTTTAAC
1 CTTAAACTTTCTTAAAATTACATTTTACC
* * *
30427103 CTCCATACTTTCTTAAAATTATATTTTAACC
1 CT-TAAACTTTCTTAAAATTACATTTT-ACC
30427134 CT
1 CT
30427136 CGAACCTTTT
Statistics
Matches: 141, Mismatches: 26, Indels: 25
0.73 0.14 0.13
Matches are distributed among these distances:
26 2 0.01
27 1 0.01
28 16 0.11
29 16 0.11
30 92 0.65
31 12 0.09
32 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.01, T:0.44
Consensus pattern (29 bp):
CTTAAACTTTCTTAAAATTACATTTTACC
Found at i:30426994 original size:60 final size:60
Alignment explanation
Indices: 30426928--30427193 Score: 283
Period size: 60 Copynumber: 4.5 Consensus size: 60
30426918 AAAGAACTCT
* * * ***
30426928 TAAACTTTCTTAAAATTATATTTTGACCCTTAAACTTTTTCAAAATTTTGTTTTAACCCC
1 TAAACTTTCTTAAAATTACATTTTGACCCTCAAACTTTTCCAAAATTACATTTTAACCCC
* * * * *
30426988 TAAACTTTCTTAAAATTACATTTTTATCCTCATACTTTTCCAAAATTACATTATAACCTC
1 TAAACTTTCTTAAAATTACATTTTGACCCTCAAACTTTTCCAAAATTACATTTTAACCCC
30427048 TAAACTTTCTTAAAATTACATTTTGATCCCT-AAAC--TTCCAAAATTACATTTTAACCTCC
1 TAAACTTTCTTAAAATTACATTTTGA-CCCTCAAACTTTTCCAAAATTACATTTTAACC-CC
* * * * * *
30427107 -ATACTTTCTTAAAATTATATTTTAACCCTCGAACCTTTTCAAAAATTACATTTCAA-CCC
1 TAAACTTTCTTAAAATTACATTTTGACCCTC-AAACTTTTCCAAAATTACATTTTAACCCC
* *
30427166 TAAATTTTC-CATAAATTACATTTTGACC
1 TAAACTTTCTTA-AAATTACATTTTGACC
30427194 TTAAATTCTC
Statistics
Matches: 171, Mismatches: 27, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
57 4 0.02
58 42 0.25
59 7 0.04
60 98 0.57
61 20 0.12
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (60 bp):
TAAACTTTCTTAAAATTACATTTTGACCCTCAAACTTTTCCAAAATTACATTTTAACCCC
Found at i:30427150 original size:118 final size:117
Alignment explanation
Indices: 30426928--30427208 Score: 304
Period size: 118 Copynumber: 2.4 Consensus size: 117
30426918 AAAGAACTCT
* * ***
30426928 TAAACTTTCTTAAAATTATATTTTGACCCTTAAACTTTTTCAAAATTTTGTTTTAACCCCTAAAC
1 TAAACTTTCTTAAAATTACATTTTGACCC-TAAAC--TTCCAAAATTACATTTTAACCCCTAAAC
* *
30426993 TTTCTTAAAATTACATTTTTATCCTCATACTTTTCC-AAAATTACATTAT-AACCTC
63 TTTCTTAAAATTACATTTTAACCCTCATACTTTTCCAAAAATTACATT-TCAACC-C
*
30427048 TAAACTTTCTTAAAATTACATTTTGATCCCTAAACTTCCAAAATTACATTTTAACCTCC-ATACT
1 TAAACTTTCTTAAAATTACATTTTGA-CCCTAAACTTCCAAAATTACATTTTAACC-CCTAAACT
*
30427112 TTCTTAAAATTATATTTTAACCCTCGA-ACCTTTT-CAAAAATTACATTTCAACCC
64 TTCTTAAAATTACATTTTAACCCTC-ATA-CTTTTCCAAAAATTACATTTCAACCC
* * * *
30427166 TAAATTTTC-CATAAATTACATTTTGACCTTAAATTCTCCAAAA
1 TAAACTTTCTTA-AAATTACATTTTGACCCTAAACT-TCCAAAA
30427209 CTTCTTTTTT
Statistics
Matches: 140, Mismatches: 13, Indels: 18
0.82 0.08 0.11
Matches are distributed among these distances:
117 8 0.06
118 76 0.54
119 23 0.16
120 30 0.21
121 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (117 bp):
TAAACTTTCTTAAAATTACATTTTGACCCTAAACTTCCAAAATTACATTTTAACCCCTAAACTTT
CTTAAAATTACATTTTAACCCTCATACTTTTCCAAAAATTACATTTCAACCC
Found at i:30427198 original size:29 final size:29
Alignment explanation
Indices: 30427149--30427205 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
30427139 ACCTTTTCAA
*
30427149 AAATTACATTTCAACCCTAAATTTTCCAT
1 AAATTACATTTCAACCCTAAATTCTCCAT
** *
30427178 AAATTACATTTTGACCTTAAATTCTCCA
1 AAATTACATTTCAACCCTAAATTCTCCA
30427206 AAACTTCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.39
Consensus pattern (29 bp):
AAATTACATTTCAACCCTAAATTCTCCAT
Found at i:30439242 original size:39 final size:39
Alignment explanation
Indices: 30439171--30439833 Score: 388
Period size: 39 Copynumber: 17.1 Consensus size: 39
30439161 AGTTACATCA
* *
30439171 CAACCATCCAATCTCTTACCTTACGAT-A-GGGGCAGATTG
1 CAACCATCCGATCTCTTACC--CCGATCATGGGGCAGATTG
* * **
30439210 CAACCATCCAATCTTTTACCCCGATCATGGGGCAGATCA
1 CAACCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
* * * * * *
30439249 CCATCAGCCAATCTTTTACCCCG--CGATAGGGGCGGATTG
1 CAACCATCCGATCTCTTACCCCGATC-AT-GGGGCAGATTG
* * * * *
30439288 TAACCATTCGATATTTTACCCCGATCATGGGGTAGA-T-
1 CAACCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
* * * * *
30439325 CACCGTCAGCCAATCTCTTACCTCGCTACA-GGGGCAGATTG
1 CAAC--CATCCGATCTCTTACCCCGAT-CATGGGGCAGATTG
* * * *
30439366 TAACCATCTGATCTTTTACCCCAATCATGGGGCAGA-T-
1 CAACCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
* * * *
30439403 CATCGTTAACCAATCTCTTACCCTGCGAT-A-GGGGCAGATTG
1 CAAC--CATCCGATCTCTTACCC--CGATCATGGGGCAGATTG
* * ** * **
30439444 C-ATCATTCGATCTCTTACCTTGATCATGAGGCAGATCA
1 CAACCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
* * **
30439482 CAACTATCCAATCTCTTACCTTGATCATGGGGCAGATTG
1 CAACCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
* * * **
30439521 C-ATCATCCGATCTCTTACCCAGATCATGAGGCAGATCA
1 CAACCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
* * * * **
30439559 CAACTACCCGATCTCTTACCCCAATCATGAGGCAGATCA
1 CAACCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
* * * *
30439598 CAACCATCCGATCTCTTACCCCGATCATAGGGTAAATTA
1 CAACCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
* * * * *
30439637 TAGCCATCCGATCTTTTACCCTGATTATGGGGCAGA-T-
1 CAACCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
* * * *
30439674 CATAGCCATTCAATCTCTTACCTCGATCATGGGGAAGATTG
1 CA-A-CCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
* * **
30439715 CAGCCATCCGATCTTTTACCCCGATCATGGGGCAGATCA
1 CAACCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
* * * * *
30439754 CAGCCACCCGATCTTTTACCCCGACCATGAGGCAGA-T-
1 CAACCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
* *
30439791 CATAGCCATCCAATCTCTTACCCTGATCATGGGGCAGATTG
1 CA-A-CCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
30439832 CA
1 CA
30439834 GTTATCCAAA
Statistics
Matches: 473, Mismatches: 121, Indels: 58
0.73 0.19 0.09
Matches are distributed among these distances:
36 3 0.01
37 13 0.03
38 59 0.12
39 378 0.80
40 9 0.02
41 11 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (39 bp):
CAACCATCCGATCTCTTACCCCGATCATGGGGCAGATTG
Found at i:30439834 original size:117 final size:117
Alignment explanation
Indices: 30439291--30439833 Score: 431
Period size: 117 Copynumber: 4.7 Consensus size: 117
30439281 CGGATTGTAA
* * * ** * * *
30439291 CCATTCGATATTTTACCCCGATCATGGGGTAGATCACCGTCAGCCAATCTCTTA-CCTCGCTACA
1 CCATCCGATCTTTTACCCCGATCATGGGGCAGATCATAGCCATCCAATCTCTTACCCT-GAT-CA
* * * *
30439355 -GGGGCAGATTGTAACCATCTGATCTTTTACCCCAATCATGGGGCAGATCATC-G
64 TGGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGGGGCAGATCA-CAG
** * * * * * *
30439408 TTAACCAATCTCTTACCCTGCGAT-A-GGGGCAGAT--T-GCATCATTCGATCTCTTACCTTGAT
1 CCATCCGATCTTTTACCC--CGATCATGGGGCAGATCATAGC--CATCCAATCTCTTACCCTGAT
* ** * * ** **
30439468 CATGAGGCAGATCACAACTATCCAATCTCTTACCTTGATCATGGGGCAGATTGCA-
62 CATGGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGGGGCAGATCACAG
* * * * * * * * * **
30439523 TCATCCGATCTCTTACCCAGATCATGAGGCAGATCACAACTACCCGATCTCTTACCCCAATCATG
1 CCATCCGATCTTTTACCCCGATCATGGGGCAGATCATAGCCATCCAATCTCTTACCCTGATCATG
* ** * * * * *
30439588 AGGCAGATCACAACCATCCGATCTCTTACCCCGATCATAGGGTAAATTATAG
66 GGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGGGGCAGATCACAG
* * *
30439640 CCATCCGATCTTTTACCCTGATTATGGGGCAGATCATAGCCATTCAATCTCTTA-CCTCGATCAT
1 CCATCCGATCTTTTACCCCGATCATGGGGCAGATCATAGCCATCCAATCTCTTACCCT-GATCAT
* * *
30439704 GGGGAAGATTGCAGCCATCCGATCTTTTACCCCGATCATGGGGCAGATCACAG
65 GGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGGGGCAGATCACAG
* * *
30439757 CCACCCGATCTTTTACCCCGACCATGAGGCAGATCATAGCCATCCAATCTCTTACCCTGATCATG
1 CCATCCGATCTTTTACCCCGATCATGGGGCAGATCATAGCCATCCAATCTCTTACCCTGATCATG
30439822 GGGCAGATTGCA
66 GGGCAGATTGCA
30439834 GTTATCCAAA
Statistics
Matches: 330, Mismatches: 81, Indels: 30
0.75 0.18 0.07
Matches are distributed among these distances:
113 3 0.01
114 2 0.01
115 26 0.08
116 113 0.34
117 177 0.54
118 5 0.02
119 4 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (117 bp):
CCATCCGATCTTTTACCCCGATCATGGGGCAGATCATAGCCATCCAATCTCTTACCCTGATCATG
GGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGGGGCAGATCACAG
Found at i:30441613 original size:30 final size:29
Alignment explanation
Indices: 30441577--30441908 Score: 231
Period size: 30 Copynumber: 11.1 Consensus size: 29
30441567 CATAAAAAAG
* *
30441577 CCCTTAAACTCTTTTAAAATTGCATTTTAA
1 CCCTTAAACT-TTTCAAAATTACATTTTAA
* *** *
30441607 CCCTTAAACTTCTCCAAAATTTTGTTTTGA
1 CCCTTAAACTT-TTCAAAATTACATTTTAA
**
30441637 CCCCCAAACTTTTCTAAAATTACATTTCT-A
1 CCCTTAAACTTTTC-AAAATTACATTT-TAA
* *
30441667 CCATTAAACTTTTCCAAAATTGCATTTTAA
1 CCCTTAAACTTTT-CAAAATTACATTTTAA
* * * *
30441697 CCCCTAAACTTTCTTAAAATAACATTTTGA
1 CCCTTAAACTTT-TCAAAATTACATTTTAA
* **
30441727 CCCCTAAACTTCCCAAAATTACATTTT-A
1 CCCTTAAACTTTTCAAAATTACATTTTAA
* *
30441755 CCCTTAAAATTTTCTAAAATTGCATTTTAA
1 CCCTTAAACTTTTC-AAAATTACATTTTAA
* *
30441785 CCTTTAAAACTTTCCCAAAATTACATTTTAA
1 CCCTT-AAACTTT-TCAAAATTACATTTTAA
* * * *
30441816 CCCCTAAACTTTCCCCAAATTACATTTTGA
1 CCCTTAAACTTT-TCAAAATTACATTTTAA
* * *
30441846 CCCTCAAACTTTTCCAAAAAATACATTTCAA
1 CCCTTAAACTTTT-C-AAAATTACATTTTAA
* *
30441877 CCCTT-AA-TTTTCCATAAATTATATTTTGA
1 CCCTTAAACTTTT-CA-AAATTACATTTTAA
30441906 CCC
1 CCC
30441909 CAAATTCTCC
Statistics
Matches: 238, Mismatches: 51, Indels: 27
0.75 0.16 0.09
Matches are distributed among these distances:
28 12 0.05
29 47 0.20
30 137 0.58
31 41 0.17
32 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.38
Consensus pattern (29 bp):
CCCTTAAACTTTTCAAAATTACATTTTAA
Found at i:30441675 original size:60 final size:60
Alignment explanation
Indices: 30441581--30441922 Score: 290
Period size: 60 Copynumber: 5.8 Consensus size: 60
30441571 AAAAAGCCCT
* *** *
30441581 TAAACTCTTT-TAAAATTGCATTTTAACCCTTAAACTTCTCCAAAATTTTGTTTTGACCCC
1 TAAACT-TTTCTAAAATTACATTTTAACCCTTAAACTTCTCCAAAATTACATTTTAACCCC
* * * *
30441641 CAAACTTTTCTAAAATTACATTTCT-ACCATTAAACTTTTCCAAAATTGCATTTTAACCCC
1 TAAACTTTTCTAAAATTACATTT-TAACCCTTAAACTTCTCCAAAATTACATTTTAACCCC
* * * *
30441701 TAAAC-TTTCTTAAAATAACATTTTGACCCCTAAACTTC-CCAAAATTACATTTT-ACCCT
1 TAAACTTTTC-TAAAATTACATTTTAACCCTTAAACTTCTCCAAAATTACATTTTAACCCC
* * *
30441759 TAAAATTTTCTAAAATTGCATTTTAACCTTTAAAACTT-TCCCAAAATTACATTTTAACCCC
1 TAAACTTTTCTAAAATTACATTTTAACCCTT-AAACTTCT-CCAAAATTACATTTTAACCCC
* ** * * * * *
30441820 TAAACTTTCCCCAAATTACATTTTGACCCTCAAACTTTTCCAAAAAATACATTTCAA-CCC
1 TAAACTTTTCTAAAATTACATTTTAACCCTTAAACTTCTCC-AAAATTACATTTTAACCCC
* * * * *
30441880 TTAA-TTTTCCATAAATTATATTTTGACCC-CAAA-TTCTCCAAAA
1 TAAACTTTTCTA-AAATTACATTTTAACCCTTAAACTTCTCCAAAA
30441923 CTTCTTTCTT
Statistics
Matches: 233, Mismatches: 37, Indels: 27
0.78 0.12 0.09
Matches are distributed among these distances:
57 4 0.02
58 29 0.12
59 41 0.18
60 117 0.50
61 42 0.18
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (60 bp):
TAAACTTTTCTAAAATTACATTTTAACCCTTAAACTTCTCCAAAATTACATTTTAACCCC
Found at i:30441914 original size:29 final size:29
Alignment explanation
Indices: 30441676--30441922 Score: 142
Period size: 29 Copynumber: 8.3 Consensus size: 29
30441666 ACCATTAAAC
*
30441676 TTTTCC-AAAATTGCATTTTAACCCCTAAA
1 TTTTCCAAAAATTACATTTTAACCCC-AAA
* ** * *
30441705 CTTTCTTAAAATAACATTTTGACCCCTAAA
1 TTTTCCAAAAATTACATTTTAACCCC-AAA
* * *
30441735 -CTTCCCAAAATTACATTTT-ACCCTTAAAA
1 TTTTCCAAAAATTACATTTTAACCC--CAAA
* * **
30441764 TTTT-CTAAAATTGCATTTTAACCTTTAAAA
1 TTTTCCAAAAATTACATTTTAACC--CCAAA
* *
30441794 CTTTCCCAAAATTACATTTTAACCCCTAAA
1 TTTTCCAAAAATTACATTTTAACCCC-AAA
* ** *
30441824 CTTTCCCCAAATTACATTTTGACCCTCAAA
1 TTTTCCAAAAATTACATTTTAACCC-CAAA
* * **
30441854 CTTTTCCAAAAAATACATTTCAACCCTTAA
1 -TTTTCCAAAAATTACATTTTAACCCCAAA
* * *
30441884 TTTTCCATAAATTATATTTTGACCCCAAA
1 TTTTCCAAAAATTACATTTTAACCCCAAA
*
30441913 TTCTCCAAAA
1 TTTTCCAAAA
30441923 CTTCTTTCTT
Statistics
Matches: 169, Mismatches: 38, Indels: 22
0.74 0.17 0.10
Matches are distributed among these distances:
28 4 0.02
29 65 0.38
30 63 0.37
31 37 0.22
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.37
Consensus pattern (29 bp):
TTTTCCAAAAATTACATTTTAACCCCAAA
Found at i:30446370 original size:4 final size:4
Alignment explanation
Indices: 30446361--30446386 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
30446351 AAGAAGCAGA
30446361 AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AA
30446387 TTAGATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:30452637 original size:66 final size:66
Alignment explanation
Indices: 30452555--30452682 Score: 231
Period size: 66 Copynumber: 1.9 Consensus size: 66
30452545 AGTGAACTTT
*
30452555 TTTAACTTATAACACTTATATTTAGTCAAACTTAAAATAGTTTAA-TCGATTGAAGCTATTTTCT
1 TTTAACTTATAACACTTATATTTAGTCAAACTTAAAATAATTTAACT-GATTGAAGCTATTTTCT
30452619 TC
65 TC
30452621 TTTAACTTATAACACTTATATTTAGTCAAACTTAAAATAATTTAACTGATTGAAGCTATTTT
1 TTTAACTTATAACACTTATATTTAGTCAAACTTAAAATAATTTAACTGATTGAAGCTATTTT
30452683 TAGTTTAGTT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
66 59 0.98
67 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (66 bp):
TTTAACTTATAACACTTATATTTAGTCAAACTTAAAATAATTTAACTGATTGAAGCTATTTTCTT
C
Found at i:30453296 original size:31 final size:32
Alignment explanation
Indices: 30453261--30453321 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
30453251 TTTATTGTTC
*
30453261 AATTTGATA-CTCAAACTTGATA-TTTTTTTCT
1 AATTTGATACCT-AAACTTGACACTTTTTTTCT
*
30453292 AATTTGGTACCTAAACTTGACACTTTTTTT
1 AATTTGATACCTAAACTTGACACTTTTTTT
30453322 TAAGTTGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (32 bp):
AATTTGATACCTAAACTTGACACTTTTTTTCT
Found at i:30453311 original size:88 final size:88
Alignment explanation
Indices: 30453217--30453393 Score: 200
Period size: 88 Copynumber: 2.0 Consensus size: 88
30453207 TTGATACTTG
* *
30453217 AACTTGACACATTTTCCTAATTTAGTACTTAAATTTTATT-GTTC-AATTTGATA-CTCAAACTT
1 AACTTGACACATTTTCCTAAGTTAGTACTTAAATTTT-TTGGGTCTAATTT-ATACCT-AAACTT
30453279 GATAT-TTTTTTCTAATTTGGTACCTA
63 GAT-TCTTTTTTCTAATTTGGTACCTA
* ** * * * *
30453305 AACTTGACACTTTTTTTTAAGTTGGTAGTTAACTTTTTTGGGTCTAATTTATACCTGAACTTGAT
1 AACTTGACACATTTTCCTAAGTTAGTACTTAAATTTTTTGGGTCTAATTTATACCTAAACTTGAT
*
30453370 TCTTTTTTTTAATTTGGTACCTA
66 TCTTTTTTCTAATTTGGTACCTA
30453393 A
1 A
30453394 TATTTTTTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
87 3 0.04
88 65 0.87
89 7 0.09
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.49
Consensus pattern (88 bp):
AACTTGACACATTTTCCTAAGTTAGTACTTAAATTTTTTGGGTCTAATTTATACCTAAACTTGAT
TCTTTTTTCTAATTTGGTACCTA
Found at i:30453339 original size:30 final size:31
Alignment explanation
Indices: 30453273--30453331 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
30453263 TTTGATACTC
* *
30453273 AAACTTGATATTTTTTTCTAATTTGGTACCT
1 AAACTTGACATTTTTTTCTAAGTTGGTACCT
30453304 AAACTTGACACTTTTTTT-TAAGTTGGTA
1 AAACTTGACA-TTTTTTTCTAAGTTGGTA
30453332 GTTAACTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (31 bp):
AAACTTGACATTTTTTTCTAAGTTGGTACCT
Found at i:30453400 original size:58 final size:58
Alignment explanation
Indices: 30453289--30453401 Score: 138
Period size: 57 Copynumber: 1.9 Consensus size: 58
30453279 GATATTTTTT
* ** *
30453289 TCTAATTTGGTACCTAAACTTGACACTTTTTTTTAAGTTGGTAGTTAACTTTTTTGGG
1 TCTAATTTGATACCTAAACTTGACACTTTTTTTTAAGTTGGTACCTAAATTTTTTGGG
* ** *
30453347 TCTAATTT-ATACCTGAACTTGATTCTTTTTTTTAATTTGGTACCTAATATTTTTT
1 TCTAATTTGATACCTAAACTTGACACTTTTTTTTAAGTTGGTACCTAA-ATTTTTT
30453402 AATATTAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
57 32 0.70
58 14 0.30
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.52
Consensus pattern (58 bp):
TCTAATTTGATACCTAAACTTGACACTTTTTTTTAAGTTGGTACCTAAATTTTTTGGG
Found at i:30460344 original size:24 final size:24
Alignment explanation
Indices: 30460309--30460421 Score: 158
Period size: 24 Copynumber: 4.8 Consensus size: 24
30460299 CTAGACAAAA
*
30460309 TTAGCTCATACGAGCCCAG-ATAGG
1 TTAGCTCTTACGAGCCCAGAAT-GG
* *
30460333 TTAGCTCTTACGAGCCTAAAAT-G
1 TTAGCTCTTACGAGCCCAGAATGG
* *
30460356 TTAGCTCTTACAAGCCTAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
30460380 TTAGCTCTTACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
30460404 TTAGCTCTTACGAGCCCA
1 TTAGCTCTTACGAGCCCA
30460422 AAATCAGAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 21 0.26
24 57 0.71
25 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGAATGG
Found at i:30460383 original size:47 final size:48
Alignment explanation
Indices: 30460309--30460421 Score: 158
Period size: 47 Copynumber: 2.4 Consensus size: 48
30460299 CTAGACAAAA
* *
30460309 TTAGCTCATACGAGCCCAGATAGGTTAGCTCTTACGAGCCTAAAAT-G
1 TTAGCTCTTACGAGCCCAGATAGGTTAGCTCTTACGAGCCCAAAATGG
* * *
30460356 TTAGCTCTTACAAGCCTAGA-ATGGTTAGCTCTTACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGATA-GGTTAGCTCTTACGAGCCCAAAATGG
30460404 TTAGCTCTTACGAGCCCA
1 TTAGCTCTTACGAGCCCA
30460422 AAATCAGAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
46 1 0.02
47 39 0.68
48 17 0.30
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (48 bp):
TTAGCTCTTACGAGCCCAGATAGGTTAGCTCTTACGAGCCCAAAATGG
Found at i:30460457 original size:27 final size:27
Alignment explanation
Indices: 30460407--30460483 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
30460397 AGAATGGTTA
* *
30460407 GCTCTTACGAGCCCAAAATCAGAATAAT
1 GCTCTTTCGAG-CCAAAATCAGAATAAC
30460435 GCTCTTTCGAGCCAAAATCAGAATAAC
1 GCTCTTTCGAGCCAAAATCAGAATAAC
* *
30460462 GCTATTTCGAGCCAGAATCAGA
1 GCTCTTTCGAGCCAAAATCAGA
30460484 TTACTCCTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 35 0.78
28 10 0.22
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (27 bp):
GCTCTTTCGAGCCAAAATCAGAATAAC
Found at i:30470366 original size:6 final size:6
Alignment explanation
Indices: 30470339--30470442 Score: 69
Period size: 6 Copynumber: 18.5 Consensus size: 6
30470329 CCCATTTTTA
* * *
30470339 AAATTT AAATCT AAATTT --ATTT AAATTT GAATTT -ACTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * * * * *
30470384 AAACTT -ATTTT GAGTTT GAATTT -AATTT AAATTT AAA-TT CATTTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
30470429 AAA-TT AAATTT AAA
1 AAATTT AAATTT AAA
30470443 CTTTGAAAGT
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
4 4 0.05
5 20 0.26
6 53 0.69
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:30470380 original size:17 final size:17
Alignment explanation
Indices: 30470342--30470440 Score: 103
Period size: 17 Copynumber: 5.9 Consensus size: 17
30470332 ATTTTTAAAA
*
30470342 TTTAAATCTAAATTTA-
1 TTTAAATTTAAATTTAT
* *
30470358 TTTAAATTTGAATTTAC
1 TTTAAATTTAAATTTAT
*
30470375 TTTAAATTTAAACTTAT
1 TTTAAATTTAAATTTAT
* * * *
30470392 TTTGAGTTTGAATTTAA
1 TTTAAATTTAAATTTAT
*
30470409 TTTAAATTTAAATTCAT
1 TTTAAATTTAAATTTAT
30470426 TTTAAA-TTAAATTTA
1 TTTAAATTTAAATTTA
30470441 AACTTTGAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
16 22 0.33
17 44 0.67
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:30470407 original size:34 final size:33
Alignment explanation
Indices: 30470340--30470441 Score: 118
Period size: 34 Copynumber: 3.1 Consensus size: 33
30470330 CCATTTTTAA
*
30470340 AATTTAAATCTAAATT-TATTTAAATTTGAATTT
1 AATTTAAATTTAAATTAT-TTTAAATTTGAATTT
* * *
30470373 ACTTTAAATTTAAACTTATTTTGAGTTTGAATTT
1 AATTTAAATTTAAA-TTATTTTAAATTTGAATTT
*
30470407 AATTTAAATTTAAATTCATTTTAAA-TTAAATTT
1 AATTTAAATTTAAATT-ATTTTAAATTTGAATTT
30470440 AA
1 AA
30470442 ACTTTGAAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
33 23 0.40
34 34 0.59
35 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (33 bp):
AATTTAAATTTAAATTATTTTAAATTTGAATTT
Found at i:30472342 original size:30 final size:31
Alignment explanation
Indices: 30472308--30472371 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
30472298 AGAAATCATA
30472308 TTTTAACCCCTAAATTTTCC-AAAATT-CCAT
1 TTTTAA-CCCTAAATTTTCCAAAAATTACCAT
* * *
30472338 TTTTAACCTTGATTTTTCCAAAAATTACCAT
1 TTTTAACCCTAAATTTTCCAAAAATTACCAT
30472369 TTT
1 TTT
30472372 ACCCACGAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 10 0.34
30 12 0.41
31 7 0.24
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.45
Consensus pattern (31 bp):
TTTTAACCCTAAATTTTCCAAAAATTACCAT
Found at i:30472400 original size:59 final size:58
Alignment explanation
Indices: 30472328--30472488 Score: 175
Period size: 59 Copynumber: 2.7 Consensus size: 58
30472318 TAAATTTTCC
*
30472328 AAAATTCCATTTTTAACCTTGATTTTTCCAAAAATTACCATTTTA-C-CCACGAACT-TCAA
1 AAAATTCCATTTTTAACCTCGATTTTTCC-AAAATTACCATTTTATCTCCA-G-A-TGTCAA
* * * * *
30472387 AAAATTCCATTTTTGATCTCGATTTTTTCAAAATTACCATTTTATCTTCAGATGTCTA
1 AAAATTCCATTTTTAACCTCGATTTTTCCAAAATTACCATTTTATCTCCAGATGTCAA
** *
30472445 AAAATTCCATTTTTAACCTCGAACCTTTCGAAAATTACCATTTT
1 AAAATTCCATTTTTAACCTCG-ATTTTTCCAAAATTACCATTTT
30472489 GTACACGAAG
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
57 1 0.01
58 38 0.44
59 45 0.52
60 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (58 bp):
AAAATTCCATTTTTAACCTCGATTTTTCCAAAATTACCATTTTATCTCCAGATGTCAA
Found at i:30472448 original size:58 final size:59
Alignment explanation
Indices: 30472328--30472488 Score: 177
Period size: 58 Copynumber: 2.7 Consensus size: 59
30472318 TAAATTTTCC
* *
30472328 AAAATTCCATTTTTAACCTTGATTTTTCCAAAAATTACCATTTTACCCACGAACTTCAA
1 AAAATTCCATTTTTAACCTCGATTTTTTCAAAAATTACCATTTTACCCACGAACTTCAA
* * * *
30472387 AAAATTCCATTTTTGATCTCGATTTTTTC-AAAATTACCATTTTATCTTCA-G-A-TGTCTA
1 AAAATTCCATTTTTAACCTCGATTTTTTCAAAAATTACCATTTTA-C-CCACGAACT-TCAA
*** *
30472445 AAAATTCCATTTTTAACCTCGAACCTTTCGAAAATTACCATTTT
1 AAAATTCCATTTTTAACCTCGATTTTTTCAAAAATTACCATTTT
30472489 GTACACGAAG
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
57 1 0.01
58 43 0.49
59 41 0.47
60 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCTCGATTTTTTCAAAAATTACCATTTTACCCACGAACTTCAA
Found at i:30472458 original size:29 final size:28
Alignment explanation
Indices: 30472386--30472459 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
30472376 ACGAACTTCA
* *
30472386 AAAAATTCCATTTTTGATCTCGATTTTTT
1 AAAAATTCCATTTTT-ATCTCGATTGTCT
*
30472415 CAAAATTACCA-TTTTATCTTCAGA-TGTCT
1 AAAAATT-CCATTTTTATC-TC-GATTGTCT
30472444 AAAAATTCCATTTTTA
1 AAAAATTCCATTTTTA
30472460 ACCTCGAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
28 6 0.16
29 26 0.70
30 5 0.14
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.46
Consensus pattern (28 bp):
AAAAATTCCATTTTTATCTCGATTGTCT
Found at i:30477388 original size:23 final size:23
Alignment explanation
Indices: 30477341--30477402 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
30477331 CCAACTTTGT
30477341 GAAAAAAAAAGGAGAAACAAAAA
1 GAAAAAAAAAGGAGAAACAAAAA
* *
30477364 GAAAAACAAAAGTAGAAA-AATAA
1 GAAAAA-AAAAGGAGAAACAAAAA
30477387 GAAAAAGAAAAGGAGA
1 GAAAAA-AAAAGGAGA
30477403 GGTTGAGGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 24 0.71
24 10 0.29
ACGTcount: A:0.74, C:0.03, G:0.19, T:0.03
Consensus pattern (23 bp):
GAAAAAAAAAGGAGAAACAAAAA
Found at i:30478496 original size:49 final size:48
Alignment explanation
Indices: 30478432--30479199 Score: 312
Period size: 49 Copynumber: 15.7 Consensus size: 48
30478422 TCATTACCAT
* * * * *
30478432 GAAGACTTGAAGGGAAAGGTTTAAGCTGTAACGGTGAACCTTATACCTCA
1 GAAGACATAAAGGGAAAGATTTAAGCTGCAACGGCGAACC--ATACCTCA
* * * * *
30478482 GAAG-CATAAAGGGAAAGATTTAAGCCGCAATGACAAATCCAGTACCAC-
1 GAAGACATAAAGGGAAAGATTTAAGCTGCAACGGCGAA-CCA-TACCTCA
** * * *
30478530 GAAGATTTGAAGGGAAAGGTTTAAG-TCGCAACGGTGAACCCGATA-C-CA
1 GAAGACATAAAGGGAAAGATTTAAGCT-GCAACGGCGAA-CC-ATACCTCA
** * * * * *
30478578 TGAAGATTTGAAGGGAAAGATTTAAGCAGTAACGACGAATCCAGTACCAC-
1 -GAAGACATAAAGGGAAAGATTTAAGCTGCAACGGCGAA-CCA-TACCTCA
* * * *
30478628 GAAGACACAGAGGGAAAGGTTTAAG-TCGCAACGGCGAACCTTGTACCTCA
1 GAAGACATAAAGGGAAAGATTTAAGCT-GCAACGGCGAACC--ATACCTCA
* * * *
30478678 G-AGACATGAAGGGAAAGATTTAAGCCGCAACTGTGAATCCAGTA-CT-A
1 GAAGACATAAAGGGAAAGATTTAAGCTGCAACGGCGAA-CCA-TACCTCA
* * * * ** *
30478725 CGAAAACACAGAGGGAAAGGTTTAAG-TCGCAACGGTAAACCTTGTACCTCA
1 -GAAGACATAAAGGGAAAGATTTAAGCT-GCAACGGCGAACC--ATACCTCA
* * * * * * *
30478776 G-ATACATGAAGGGAAAGGTTTAAGCCGTAACGGTGAATCCAGTACCAC-
1 GAAGACATAAAGGGAAAGATTTAAGCTGCAACGGCGAA-CCA-TACCTCA
* * *
30478824 GAAGACATAAAGGGAAAGGTTTAAG-TCGCAACGGCAAACCTTGTACCTCA
1 GAAGACATAAAGGGAAAGATTTAAGCT-GCAACGGCGAACC--ATACCTCA
* * *
30478874 -AAGACATGAAA-GGAAAGATTTAAGCCGCAACGGCGAATCCAGTAACAC-
1 GAAGACAT-AAAGGGAAAGATTTAAGCTGCAACGGCGAA-CCA-TACCTCA
* *
30478922 GAAGACATAGAGGGAAAGATTTAAG-TCGCAACGGCGAACCTTGTACCTCA
1 GAAGACATAAAGGGAAAGATTTAAGCT-GCAACGGCGAACC--ATACCTCA
* * * ** *
30478972 GAA-ACATGAAGGGAAAGATTTAAGCCGTAACGATGAATCCAGTACCACA
1 GAAGACATAAAGGGAAAGATTTAAGCTGCAACGGCGAA-CCA-TACCTCA
* * *
30479021 -AAGACACAGAA-GGAAAGGTTTAAG-TCGCAACGGCGAACCTTGTACCTCA
1 GAAGACATA-AAGGGAAAGATTTAAGCT-GCAACGGCGAACC--ATACCTCA
* * * *
30479070 -AAGACATGAAGGGAAAGATTTAAGCCGTAACGGCGAATCCAGTACCAC-
1 GAAGACATAAAGGGAAAGATTTAAGCTGCAACGGCGAA-CCA-TACCTCA
* * * * * * *
30479118 GAAGACACAGAGGGAAAGGTTTAAG-TCGTAACGGTGAACCTTGTACATC-
1 GAAGACATAAAGGGAAAGATTTAAGCT-GCAACGGCGAACC--ATACCTCA
*
30479167 GAAGACATGAAGGGAAAGATTTAAG-TCGCAACG
1 GAAGACATAAAGGGAAAGATTTAAGCT-GCAACG
30479200 ATGAATTTAG
Statistics
Matches: 539, Mismatches: 120, Indels: 119
0.69 0.15 0.15
Matches are distributed among these distances:
47 2 0.00
48 29 0.05
49 476 0.88
50 30 0.06
51 2 0.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (48 bp):
GAAGACATAAAGGGAAAGATTTAAGCTGCAACGGCGAACCATACCTCA
Found at i:30478595 original size:98 final size:99
Alignment explanation
Indices: 30478442--30479205 Score: 928
Period size: 98 Copynumber: 7.8 Consensus size: 99
30478432 GAAGACTTGA
* * * *
30478442 AGGGAAAGGTTTAAG-CTGTAACGGTGAACCTTATACCTCAGAAG-CATAAAGGGAAAGATTTAA
1 AGGGAAAGGTTTAAGTC-GCAACGGCGAACCTTGTACCTC-GAAGACATGAAGGGAAAGATTTAA
* * ****
30478505 GCCGCAATGACAAATCCAGTACCACGAAGATTTGA-
64 GCCGCAACGACGAATCCAGTACCACGAAGACCACAG
* * **
30478540 AGGGAAAGGTTTAAGTCGCAACGGTGAACC-CGATACCAT-GAAGATTTGAAGGGAAAGATTTAA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTG-TACC-TCGAAGACATGAAGGGAAAGATTTAA
* *
30478603 GCAGTAACGACGAATCCAGTACCACGAAGA-CACAG
64 GCCGCAACGACGAATCCAGTACCACGAAGACCACAG
30478638 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTC-AGAGACATGAAGGGAAAGATTTAAG
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCGA-AGACATGAAGGGAAAGATTTAAG
* * *
30478702 CCGCAACTG-TGAATCCAGTACTACGAA-AACACAG
65 CCGCAAC-GACGAATCCAGTACCACGAAGACCACAG
** * *
30478736 AGGGAAAGGTTTAAGTCGCAACGGTAAACCTTGTACCTC-AGATACATGAAGGGAAAGGTTTAAG
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCGA-AGACATGAAGGGAAAGATTTAAG
* ** * *
30478800 CCGTAACGGTGAATCCAGTACCACGAAGA-CATAA
65 CCGCAACGACGAATCCAGTACCACGAAGACCACAG
* * *
30478834 AGGGAAAGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAAAGACATGAAAGGAAAGATTTAAGC
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCGAAGACATGAAGGGAAAGATTTAAGC
* * *
30478899 CGCAACGGCGAATCCAGTAACACGAAGA-CATAG
66 CGCAACGACGAATCCAGTACCACGAAGACCACAG
*
30478932 AGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCTCAGAA-ACATGAAGGGAAAGATTTAAG
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTC-GAAGACATGAAGGGAAAGATTTAAG
* * *
30478996 CCGTAACGATGAATCCAGTACCACAAAGA-CACAG
65 CCGCAACGACGAATCCAGTACCACGAAGACCACAG
* *
30479030 AAGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAGACATGAAGGGAAAGATTTAAGC
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCGAAGACATGAAGGGAAAGATTTAAGC
* *
30479095 CGTAACGGCGAATCCAGTACCACGAAGA-CACAG
66 CGCAACGACGAATCCAGTACCACGAAGACCACAG
* * * *
30479128 AGGGAAAGGTTTAAGTCGTAACGGTGAACCTTGTACATCGAAGACATGAAGGGAAAGATTTAAGT
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCGAAGACATGAAGGGAAAGATTTAAGC
*
30479193 CGCAACGATGAAT
66 CGCAACGACGAAT
30479206 TTAGAGGGAA
Statistics
Matches: 589, Mismatches: 62, Indels: 30
0.86 0.09 0.04
Matches are distributed among these distances:
97 11 0.02
98 570 0.97
99 8 0.01
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (99 bp):
AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCGAAGACATGAAGGGAAAGATTTAAGC
CGCAACGACGAATCCAGTACCACGAAGACCACAG
Found at i:30478788 original size:196 final size:196
Alignment explanation
Indices: 30478442--30479498 Score: 1264
Period size: 196 Copynumber: 5.5 Consensus size: 196
30478432 GAAGACTTGA
* * * *
30478442 AGGGAAAGGTTTAAG-CTGTAACGGTGAACCTTATACCTCAGA-AGCATAAAGGGAAAGATTTAA
1 AGGGAAAGGTTTAAGTC-GCAACGGCGAACCTTGTACCTCAGAGA-CATGAAGGGAAAGATTTAA
* * * ***
30478505 GCCGCAATGACAAATCCAGTACCACGAAGA-TTTGAAGGGAAAGGTTTAAGTCGCAACGGTGAAC
64 GCCGCAACGGCGAATCCAGTACCACGAAGACACAG-AGGGAAAGGTTTAAGTCGCAACGGTGAAC
* * **
30478569 C-CGATACCATGA-AGATTTGAAGGGAAAGATTTAAGCAGTAACGACGAATCCAGTACCACGAAG
128 CTTG-TACC-TCAGAGACATGAAGGGAAAGATTTAAGCAGTAACGACGAATCCAGTACCACGAAG
30478632 ACACAG
191 ACACAG
30478638 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAGACATGAAGGGAAAGATTTAAGC
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAGACATGAAGGGAAAGATTTAAGC
* * * * *
30478703 CGCAACTGTGAATCCAGTACTACGAAAACACAGAGGGAAAGGTTTAAGTCGCAACGGTAAACCTT
66 CGCAACGGCGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTAAGTCGCAACGGTGAACCTT
* * * ** *
30478768 GTACCTCAGATACATGAAGGGAAAGGTTTAAGCCGTAACGGTGAATCCAGTACCACGAAGACATA
131 GTACCTCAGAGACATGAAGGGAAAGATTTAAGCAGTAACGACGAATCCAGTACCACGAAGACACA
*
30478833 A
196 G
* * *
30478834 AGGGAAAGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAAAGACATGAAAGGAAAGATTTAAGC
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAGACATGAAGGGAAAGATTTAAGC
* * * *
30478899 CGCAACGGCGAATCCAGTAACACGAAGACATAGAGGGAAAGATTTAAGTCGCAACGGCGAACCTT
66 CGCAACGGCGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTAAGTCGCAACGGTGAACCTT
* * * *
30478964 GTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGTAACGATGAATCCAGTACCACAAAGACACA
131 GTACCTCAGAGACATGAAGGGAAAGATTTAAGCAGTAACGACGAATCCAGTACCACGAAGACACA
30479029 G
196 G
* *
30479030 AAGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAGACATGAAGGGAAAGATTTAAGC
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAGACATGAAGGGAAAGATTTAAGC
* *
30479095 CGTAACGGCGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTAAGTCGTAACGGTGAACCTT
66 CGCAACGGCGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTAAGTCGCAACGGTGAACCTT
* * ***
30479160 GTACATC-GAAGACATGAAGGGAAAGATTT-A--AGT--CG-C-AA--C-G----ATG-A-ATTT
131 GTACCTCAG-AGACATGAAGGGAAAGATTTAAGCAGTAACGACGAATCCAGTACCACGAAGACAC
30479208 AG
195 AG
* * * * *
30479210 AGGGAAAGGTTTAAGTCGCTACGGCGAACCTT-TACATCAGAGACATGAAGGAAAATATTTAAGT
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAGACATGAAGGGAAAGATTTAAGC
* * *
30479274 CGCAACGGCGAATCTAGTACCACGAAGACACAGAGGGAAAGGTTTAAGTTGCAACGGCGAACCTT
66 CGCAACGGCGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTAAGTCGCAACGGTGAACCTT
* * * *
30479339 GTACCTTAAAGACATGAAGTGAAAGATTTAAGTC-GCAACGACGAATCCAGTACCACGAAGACAC
131 GTACCTCAGAGACATGAAGGGAAAGATTTAAG-CAGTAACGACGAATCCAGTACCACGAAGACAC
30479403 AG
195 AG
* * * *
30479405 AGGGAAAGGTTTAAGTTGCAACGGTGAACCTTGTACCTCA-AAAGCATGAAAGAGAAAGATTTAA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAGA-CATG-AAGGGAAAGATTTAA
* * * *
30479469 GTCGTAACGGCGAATCTAGTACCATGAAGA
64 GCCGCAACGGCGAATCCAGTACCACGAAGA
30479499 TTTGAAGAGA
Statistics
Matches: 741, Mismatches: 93, Indels: 53
0.84 0.10 0.06
Matches are distributed among these distances:
179 111 0.15
180 34 0.05
181 1 0.00
182 2 0.00
184 2 0.00
185 1 0.00
186 3 0.00
187 1 0.00
188 1 0.00
189 3 0.00
191 2 0.00
193 4 0.01
194 1 0.00
195 38 0.05
196 493 0.67
197 44 0.06
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (196 bp):
AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAGACATGAAGGGAAAGATTTAAGC
CGCAACGGCGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTAAGTCGCAACGGTGAACCTT
GTACCTCAGAGACATGAAGGGAAAGATTTAAGCAGTAACGACGAATCCAGTACCACGAAGACACA
G
Found at i:30479275 original size:81 final size:82
Alignment explanation
Indices: 30479126--30479280 Score: 244
Period size: 81 Copynumber: 1.9 Consensus size: 82
30479116 ACGAAGACAC
* *
30479126 AGAGGGAAAGGTTTAAGTCGTAACGGTGAACCTTGTACATCGAAGACATGAAGGGAAAGATTTAA
1 AGAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTGTACATCGAAGACATGAAGGAAAAGATTTAA
30479191 GTCGCAACGATGAATTT
66 GTCGCAACGATGAATTT
*
30479208 AGAGGGAAAGGTTTAAGTCGCT-ACGGCGAACCTT-TACATC-AGAGACATGAAGGAAAATATTT
1 AGAGGGAAAGGTTTAAGTCG-TAACGGCGAACCTTGTACATCGA-AGACATGAAGGAAAAGATTT
30479270 AAGTCGCAACG
64 AAGTCGCAACG
30479281 GCGAATCTAG
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
80 1 0.01
81 35 0.51
82 31 0.46
83 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (82 bp):
AGAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTGTACATCGAAGACATGAAGGAAAAGATTTAA
GTCGCAACGATGAATTT
Found at i:30479282 original size:48 final size:46
Alignment explanation
Indices: 30479212--30479482 Score: 170
Period size: 49 Copynumber: 5.6 Consensus size: 46
30479202 GAATTTAGAG
* *
30479212 GGAAAGGTTTAAGTCGCTACGGCGAACCTTTACATCAGAGACATGAA
1 GGAAAGATTTAAGTCGCAACGGCGAACCTTTAC-TCAGAGACATGAA
* * * * *
30479259 GGAAAATATTTAAGTCGCAACGGCGAATCTAGTAC-CACGAAGACACAGAG
1 GG-AAAGATTTAAGTCGCAACGGCGAACCT-TTACTCA-G-AGACA-TGAA
* * * *
30479309 GGAAAGGTTTAAGTTGCAACGGCGAACCTTGTACCTTAAAGACATGAA
1 GGAAAGATTTAAGTCGCAACGGCGAACCTT-TA-CTCAGAGACATGAA
* ** * *
30479357 GTGAAAGATTTAAGTCGCAACGACGAATCCAGTAC-CACGAAGACACAGAG
1 G-GAAAGATTTAAGTCGCAACGGCGAA-CCTTTACTCA-G-AGACA-TGAA
* * * *
30479407 GGAAAGGTTTAAGTTGCAACGGTGAACCTTGTACCTCA-AAAGCATGAAA
1 GGAAAGATTTAAGTCGCAACGGCGAACCTT-TA-CTCAGAGA-CATG-AA
*
30479456 GAGAAAGATTTAAGTCGTAACGGCGAA
1 G-GAAAGATTTAAGTCGCAACGGCGAA
30479483 TCTAGTACCA
Statistics
Matches: 167, Mismatches: 38, Indels: 35
0.70 0.16 0.15
Matches are distributed among these distances:
47 5 0.03
48 33 0.20
49 94 0.56
50 32 0.19
51 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (46 bp):
GGAAAGATTTAAGTCGCAACGGCGAACCTTTACTCAGAGACATGAA
Found at i:30479328 original size:49 final size:49
Alignment explanation
Indices: 30479266--30479498 Score: 218
Period size: 49 Copynumber: 4.7 Consensus size: 49
30479256 GAAGGAAAAT
30479266 ATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGACACAGAGGGAAAG
1 ATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGACACAGAGGGAAAG
* * * * *** * *
30479315 GTTTAAGTTGCAACGGCGAACCTTGTACCTTAAAGACA-TGAAGTGAAAG
1 ATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGACACAG-AGGGAAAG
* *
30479364 ATTTAAGTCGCAACGACGAATCCAGTACCACGAAGACACAGAGGGAAAG
1 ATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGACACAGAGGGAAAG
* * * * * * * * * *
30479413 GTTTAAGTTGCAACGGTGAACCTTGTACCTC-AAAAGCATGAAAGAGAAAG
1 ATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGA-CA-CAGAGGGAAAG
* *
30479463 ATTTAAGTCGTAACGGCGAATCTAGTACCATGAAGA
1 ATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGA
30479499 TTTGAAGAGA
Statistics
Matches: 138, Mismatches: 41, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
48 4 0.03
49 99 0.72
50 32 0.23
51 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.19
Consensus pattern (49 bp):
ATTTAAGTCGCAACGGCGAATCTAGTACCACGAAGACACAGAGGGAAAG
Found at i:30479384 original size:98 final size:97
Alignment explanation
Indices: 30479208--30479498 Score: 424
Period size: 98 Copynumber: 3.0 Consensus size: 97
30479198 CGATGAATTT
* * * * *
30479208 AGAGGGAAAGGTTTAAGTCGCTACGGCGAACCTT-TACATCAGAGACATGAAGGAAAATATTTAA
1 AGAGGGAAAGGTTTAAGTTGCAACGGCGAACCTTGTACCTCAAAGACATGAAGG-AAAGATTTAA
30479272 GTCGCAACGGCGAATCTAGTACCACGAAGACAC
65 GTCGCAACGGCGAATCTAGTACCACGAAGACAC
*
30479305 AGAGGGAAAGGTTTAAGTTGCAACGGCGAACCTTGTACCTTAAAGACATGAAGTGAAAGATTTAA
1 AGAGGGAAAGGTTTAAGTTGCAACGGCGAACCTTGTACCTCAAAGACATGAAG-GAAAGATTTAA
* *
30479370 GTCGCAACGACGAATCCAGTACCACGAAGACAC
65 GTCGCAACGGCGAATCTAGTACCACGAAGACAC
*
30479403 AGAGGGAAAGGTTTAAGTTGCAACGGTGAACCTTGTACCTCAAA-AGCATGAAAGAGAAAGATTT
1 AGAGGGAAAGGTTTAAGTTGCAACGGCGAACCTTGTACCTCAAAGA-CATG-AAG-GAAAGATTT
* *
30479467 AAGTCGTAACGGCGAATCTAGTACCATGAAGA
63 AAGTCGCAACGGCGAATCTAGTACCACGAAGA
30479499 TTTGAAGAGA
Statistics
Matches: 175, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
97 33 0.19
98 101 0.58
99 41 0.23
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (97 bp):
AGAGGGAAAGGTTTAAGTTGCAACGGCGAACCTTGTACCTCAAAGACATGAAGGAAAGATTTAAG
TCGCAACGGCGAATCTAGTACCACGAAGACAC
Found at i:30479816 original size:103 final size:103
Alignment explanation
Indices: 30479629--30479822 Score: 300
Period size: 103 Copynumber: 1.9 Consensus size: 103
30479619 ACAATGGCAA
* * * * *
30479629 GTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTTAACGTCAATTCCTATCCTCTT
1 GTCTTCATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACGACAAATCCTATCCTCCT
*
30479694 GAAGTTGCAGTAAAGTTGGATTAAAAATAAATAAACAG
66 GAAGTTGCAGGAAAGTTGGATTAAAAATAAATAAACAG
* *
30479732 GTCTTCATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACGACAAATCTTATCTTCCT
1 GTCTTCATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACGACAAATCCTATCCTCCT
30479797 GAAGTTGCAGCGAAA-TTGGATTAAAA
66 GAAGTTGCAG-GAAAGTTGGATTAAAA
30479823 CTACAGCGGT
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 79 0.96
104 3 0.04
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (103 bp):
GTCTTCATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACGACAAATCCTATCCTCCT
GAAGTTGCAGGAAAGTTGGATTAAAAATAAATAAACAG
Found at i:30480095 original size:39 final size:39
Alignment explanation
Indices: 30479878--30480168 Score: 176
Period size: 39 Copynumber: 7.5 Consensus size: 39
30479868 GTGAAGTTAT
* * * *
30479878 ATCATCAACCAATATTTTACCCTGAGCCTGAGGCAGATC
1 ATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATC
* * * *
30479917 ATCATCAACCTATCTCTTACCTCGAGCTTGAGGCAGAT-
1 ATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATC
* **** * *
30479955 -TGCAGCCATTTTATCTTTTACCCCAAGCCTGGGGCAGATC
1 AT-CA-TCAACCAATCTCTTACCCCGAGCCTGGGGCAGATC
* * * *
30479995 ATCGTTAACCAATCTCTTACCTCGAGCCTGGGGCAGATT
1 ATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATC
* * * * *
30480034 A-CAACCATCCAACCTGTTACCCCGAGCCTAGGGCAGATC
1 ATC-ATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATC
* * * *
30480073 ATCATCAACAAATCTCTTACCCCGTGCTTGGGGCAGATT
1 ATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATC
* ** * * * * *
30480112 GT-AGTCATTCGATCTCTTACCTCGAGCTTGAGGTAGATC
1 ATCA-TCAACCAATCTCTTACCCCGAGCCTGGGGCAGATC
* *
30480151 ATCATCAGCCAACCTCTT
1 ATCATCAACCAATCTCTT
30480169 TCTCGATCAT
Statistics
Matches: 185, Mismatches: 59, Indels: 16
0.71 0.23 0.06
Matches are distributed among these distances:
37 1 0.01
38 4 0.02
39 176 0.95
40 3 0.02
41 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (39 bp):
ATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATC
Found at i:30480132 original size:78 final size:78
Alignment explanation
Indices: 30479894--30480168 Score: 291
Period size: 78 Copynumber: 3.5 Consensus size: 78
30479884 AACCAATATT
* * *
30479894 TTACCCTGAGCCTGAGGCAGATCATCATCAACCTATCTCTTACCTCGAGCTTGAGGCAGATTGCA
1 TTACCCCGAGCCTGAGGCAGATCATCATCAACCAATCTCTTACCTCGAGCTTGGGGCAGATTGCA
** *
30479959 GCCATTTTATCTT
66 GCCATTCAATCTC
* * * * * *
30479972 TTACCCCAAGCCTGGGGCAGATCATCGTTAACCAATCTCTTACCTCGAGCCTGGGGCAGATTACA
1 TTACCCCGAGCCTGAGGCAGATCATCATCAACCAATCTCTTACCTCGAGCTTGGGGCAGATTGCA
* * * *
30480037 ACCATCCAACCTG
66 GCCATTCAATCTC
* * * *
30480050 TTACCCCGAGCCT-AGGGCAGATCATCATCAACAAATCTCTTACCCCGTGCTTGGGGCAGATTGT
1 TTACCCCGAGCCTGA-GGCAGATCATCATCAACCAATCTCTTACCTCGAGCTTGGGGCAGATTGC
* *
30480114 AGTCATTCGATCTC
65 AGCCATTCAATCTC
* * * * *
30480128 TTACCTCGAGCTTGAGGTAGATCATCATCAGCCAACCTCTT
1 TTACCCCGAGCCTGAGGCAGATCATCATCAACCAATCTCTT
30480169 TCTCGATCAT
Statistics
Matches: 158, Mismatches: 37, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
78 157 0.99
79 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (78 bp):
TTACCCCGAGCCTGAGGCAGATCATCATCAACCAATCTCTTACCTCGAGCTTGGGGCAGATTGCA
GCCATTCAATCTC
Found at i:30480635 original size:6 final size:6
Alignment explanation
Indices: 30480608--30480711 Score: 60
Period size: 6 Copynumber: 18.5 Consensus size: 6
30480598 CCCATTTTTA
* * *
30480608 AAATTT AAATCT AAATTT --ATTT AAATTT GAATTT -ACTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * * ** * *
30480653 AAACTT -ATTTT GAGTTT GGATTT -AATTT AAATTT AAA-TT CATTTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
30480698 AAA-TT AAATTT AAA
1 AAATTT AAATTT AAA
30480712 CTTTGAAAGT
Statistics
Matches: 75, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
4 4 0.05
5 19 0.25
6 52 0.69
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:30480649 original size:17 final size:17
Alignment explanation
Indices: 30480611--30480709 Score: 94
Period size: 17 Copynumber: 5.9 Consensus size: 17
30480601 ATTTTTAAAA
*
30480611 TTTAAATCTAAATTTA-
1 TTTAAATTTAAATTTAT
* *
30480627 TTTAAATTTGAATTTAC
1 TTTAAATTTAAATTTAT
*
30480644 TTTAAATTTAAACTTAT
1 TTTAAATTTAAATTTAT
* * ** *
30480661 TTTGAGTTTGGATTTAA
1 TTTAAATTTAAATTTAT
*
30480678 TTTAAATTTAAATTCAT
1 TTTAAATTTAAATTTAT
30480695 TTTAAA-TTAAATTTA
1 TTTAAATTTAAATTTA
30480710 AACTTTGAAA
Statistics
Matches: 64, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
16 22 0.34
17 42 0.66
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:30480682 original size:34 final size:33
Alignment explanation
Indices: 30480609--30480710 Score: 109
Period size: 34 Copynumber: 3.1 Consensus size: 33
30480599 CCATTTTTAA
*
30480609 AATTTAAATCTAAATT-TATTTAAATTTGAATTT
1 AATTTAAATTTAAATTAT-TTTAAATTTGAATTT
* * * *
30480642 ACTTTAAATTTAAACTTATTTTGAGTTTGGATTT
1 AATTTAAATTTAAA-TTATTTTAAATTTGAATTT
*
30480676 AATTTAAATTTAAATTCATTTTAAA-TTAAATTT
1 AATTTAAATTTAAATT-ATTTTAAATTTGAATTT
30480709 AA
1 AA
30480711 ACTTTGAAAG
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
33 22 0.39
34 33 0.59
35 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (33 bp):
AATTTAAATTTAAATTATTTTAAATTTGAATTT
Found at i:30480688 original size:11 final size:11
Alignment explanation
Indices: 30480672--30480711 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
30480662 TTGAGTTTGG
*
30480672 ATTTAATTTAA
1 ATTTAAATTAA
*
30480683 ATTTAAATTCA
1 ATTTAAATTAA
*
30480694 TTTTAAATTAA
1 ATTTAAATTAA
30480705 ATTTAAA
1 ATTTAAA
30480712 CTTTGAAAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:30482602 original size:30 final size:29
Alignment explanation
Indices: 30482542--30482775 Score: 126
Period size: 30 Copynumber: 8.0 Consensus size: 29
30482532 CTGAAAGTCT
* *
30482542 CTAAACTGTCCAAAAAT-CATATTTTGACCC
1 CTAAACTTTCCAAAATTCCAT-TTTTGA-CC
*
30482572 CTAAACTTTCCAAAATTCCATTTTTAACC
1 CTAAACTTTCCAAAATTCCATTTTTGACC
** ** *
30482601 CCGATTTTTCTAAAAATTACCA-TTTT-ACC
1 CTAAACTTTC-CAAAATT-CCATTTTTGACC
30482630 CTCAAAC-TTCCAAAAATTCCATTTTTGACC
1 CT-AAACTTTCC-AAAATTCCATTTTTGACC
* ** ***
30482660 CTGATTTTTCCAAAAATTACCATTTTACCCC
1 CTAAACTTTCC-AAAATT-CCATTTTTGACC
30482691 CT-AAC-TTCCAAATATTCCATTTTTGACC
1 CTAAACTTTCCAAA-ATTCCATTTTTGACC
** *
30482719 CTAATTTTTCCAAAAATTACA-TTTT-ACC
1 CTAAACTTTCC-AAAATTCCATTTTTGACC
* *
30482747 CTCGAAC-TTCCAAAAATTCTATTTTTGAC
1 CT-AAACTTTCC-AAAATTCCATTTTTGAC
30482776 ATTGATTTTT
Statistics
Matches: 156, Mismatches: 32, Indels: 32
0.71 0.15 0.15
Matches are distributed among these distances:
28 34 0.22
29 43 0.28
30 59 0.38
31 20 0.13
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.38
Consensus pattern (29 bp):
CTAAACTTTCCAAAATTCCATTTTTGACC
Found at i:30482653 original size:28 final size:28
Alignment explanation
Indices: 30482612--30482771 Score: 142
Period size: 30 Copynumber: 5.5 Consensus size: 28
30482602 CGATTTTTCT
30482612 AAAAATTACCATTTTACCCTCAAACTTCC
1 AAAAATT-CCATTTTACCCTCAAACTTCC
* ***
30482641 AAAAATTCCATTTTTGACCCTGATTTTTCC
1 AAAAATTCCA-TTTT-ACCCTCAAACTTCC
* *
30482671 AAAAATTACCATTTTACCCCCTAACTTCC
1 AAAAATT-CCATTTTACCCTCAAACTTCC
* **
30482700 AAATATTCCATTTTTGACCCT-AATTTTTCC
1 AAAAATTCCA-TTTT-ACCCTCAA-ACTTCC
* *
30482730 AAAAATTACATTTTACCCTCGAACTTCC
1 AAAAATTCCATTTTACCCTCAAACTTCC
*
30482758 AAAAATTCTATTTT
1 AAAAATTCCATTTT
30482772 TGACATTGAT
Statistics
Matches: 102, Mismatches: 22, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
28 27 0.26
29 35 0.34
30 37 0.36
31 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (28 bp):
AAAAATTCCATTTTACCCTCAAACTTCC
Found at i:30482771 original size:58 final size:59
Alignment explanation
Indices: 30482570--30482802 Score: 330
Period size: 59 Copynumber: 4.0 Consensus size: 59
30482560 ATATTTTGAC
* * *
30482570 CCCT-AAACTTTCC-AAAATTCCATTTTTAACCCCGATTTTTCTAAAAATTACCATTTTA
1 CCCTCAAAC-TTCCAAAAATTCCATTTTTGACCCTGATTTTTCCAAAAATTACCATTTTA
30482628 CCCTCAAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCAAAAATTACCATTTTA
1 CCCTCAAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCAAAAATTACCATTTTA
* * * *
30482687 CCCCCTAACTTCCAAATATTCCATTTTTGACCCTAATTTTTCCAAAAATTA-CATTTTA
1 CCCTCAAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCAAAAATTACCATTTTA
* * **
30482745 CCCTCGAACTTCCAAAAATTCTATTTTTGACATTGATTTTTCC-AAAATTACCATTTTA
1 CCCTCAAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCAAAAATTACCATTTTA
30482803 TCCACGGATG
Statistics
Matches: 158, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
57 7 0.04
58 58 0.37
59 93 0.59
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (59 bp):
CCCTCAAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCAAAAATTACCATTTTA
Found at i:30482869 original size:117 final size:118
Alignment explanation
Indices: 30482608--30482861 Score: 293
Period size: 117 Copynumber: 2.2 Consensus size: 118
30482598 ACCCCGATTT
* *
30482608 TTCTAAAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCAA
1 TTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACACTGATTTTTCCAA
* * * * **
30482673 AAATTACCATTTTACCCCCTAACTTCCAAATATTCCATTTTTGACCCTAATTT
66 AAATTACCATTTTACCCACGAACTTCCAAAAATTCCATTTTAGACCCTAATCC
* * *
30482726 TTCCAAAAATTA-CATTTTACCCTCGAACTTCCAAAAATTCTATTTTTGACATTGATTTTTCC-A
1 TTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACACTGATTTTTCCAA
* * ** *
30482789 AAATTACCATTTTATCCACGGA-TGTTTAAAAATTCCAATTTTAG-CCTTGAA-CC
66 AAATTACCATTTTACCCACGAACT-TCCAAAAATTCC-ATTTTAGACCCT-AATCC
*
30482842 TTCTGAAAATTACCATTTTA
1 TTCTAAAAATTACCATTTTA
30482862 TTCTCGAAGC
Statistics
Matches: 114, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
115 1 0.01
116 41 0.36
117 61 0.54
118 11 0.10
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (118 bp):
TTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACACTGATTTTTCCAA
AAATTACCATTTTACCCACGAACTTCCAAAAATTCCATTTTAGACCCTAATCC
Found at i:30482889 original size:29 final size:28
Alignment explanation
Indices: 30482851--30482906 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
30482841 CTTCTGAAAA
**
30482851 TTACCATTTTATTCTCGAAGCATCCAAAT
1 TTACCATTTTACCCTC-AAGCATCCAAAT
*
30482880 TTACCGTTTTACCCTCAAGCATCCAAA
1 TTACCATTTTACCCTCAAGCATCCAAA
30482907 AATCACATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (28 bp):
TTACCATTTTACCCTCAAGCATCCAAAT
Found at i:30485964 original size:24 final size:25
Alignment explanation
Indices: 30485898--30485970 Score: 85
Period size: 26 Copynumber: 2.9 Consensus size: 25
30485888 CTATTTGAAT
*
30485898 GTGTTCAAGCTGGCGAGCGTAAACA
1 GTGTACAAGCTGGCGAGCGTAAACA
* * *
30485923 GATATATAAGCTGACGAGCGTAAAC-
1 G-TGTACAAGCTGGCGAGCGTAAACA
*
30485948 GTGTGCAAGCTGGCGAGCGTAAA
1 GTGTACAAGCTGGCGAGCGTAAA
30485971 ACGCAATGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 18 0.46
25 2 0.05
26 19 0.49
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.19
Consensus pattern (25 bp):
GTGTACAAGCTGGCGAGCGTAAACA
Found at i:30488999 original size:6 final size:6
Alignment explanation
Indices: 30488990--30489086 Score: 74
Period size: 6 Copynumber: 16.2 Consensus size: 6
30488980 TTAAATTGGT
* ** **
30488990 TTTAAA TTT-AT TCTTAAA TTTAAA TTTATT TTTAAA TTTAAA TTTATTT
1 TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA-AA
** *
30489039 TTTAAA TTTAAA TTT-GT TTTAAA TTTAAA TTT-AG TTTAAA TTTGAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA
30489086 T
1 T
30489087 GGTTTTAGAC
Statistics
Matches: 69, Mismatches: 16, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
5 9 0.13
6 50 0.72
7 10 0.14
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:30489011 original size:18 final size:17
Alignment explanation
Indices: 30488990--30489086 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 17
30488980 TTAAATTGGT
30488990 TTTAAATTTATTCTTAAA
1 TTTAAATTTATT-TTAAA
30489008 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
30489026 TTTAAATTTATTTTTTAAA
1 TTTAAATTTA--TTTTAAA
*
30489045 TTTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
*
30489062 TTTAAATTTAGTTTAAA
1 TTTAAATTTATTTTAAA
30489079 TTTGAAAT
1 TTT-AAAT
30489087 GGTTTTAGAC
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 25 0.34
18 29 0.40
19 19 0.26
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:30489023 original size:12 final size:12
Alignment explanation
Indices: 30488974--30489081 Score: 62
Period size: 12 Copynumber: 9.2 Consensus size: 12
30488964 TAAGTTTATA
30488974 TTAATTTTAAA-
1 TTAATTTTAAAT
**
30488985 TTGGTTTTAAAT
1 TTAATTTTAAAT
30488997 TT-ATTCTTAAAT
1 TTAATT-TTAAAT
* **
30489009 TTAAATTTATTT
1 TTAATTTTAAAT
*
30489021 TTAAATTTAAAT
1 TTAATTTTAAAT
*
30489033 TTATTTTTTAAAT
1 TTA-ATTTTAAAT
* **
30489046 TTAAATTT-GTT
1 TTAATTTTAAAT
*
30489057 TTAAATTTAAAT
1 TTAATTTTAAAT
*
30489069 TT-AGTTTAAAT
1 TTAATTTTAAAT
30489080 TT
1 TT
30489082 GAAATGGTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
11 30 0.40
12 33 0.44
13 12 0.16
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (12 bp):
TTAATTTTAAAT
Found at i:30489093 original size:17 final size:15
Alignment explanation
Indices: 30489026--30489093 Score: 50
Period size: 17 Copynumber: 4.3 Consensus size: 15
30489016 TATTTTTAAA
*
30489026 TTTAAATTT--ATTT
1 TTTAAATTTAAATGT
30489039 TTTAAATTTAAATTTGT
1 TTTAAATTTAAA--TGT
*
30489056 TTTAAATTTAAATTT
1 TTTAAATTTAAATGT
30489071 AGTTTAAATTTGAAATGGT
1 --TTTAAATTT-AAAT-GT
30489090 TTTA
1 TTTA
30489094 GACGTAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
13 9 0.20
15 3 0.07
17 27 0.61
18 4 0.09
19 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTAAATTTAAATGT
Found at i:30490930 original size:30 final size:30
Alignment explanation
Indices: 30490897--30491147 Score: 172
Period size: 30 Copynumber: 8.5 Consensus size: 30
30490887 AAGGTCCCTG
* *
30490897 AACTATCCAAAAATCATATTTTAACCCTCG
1 AACTTTCCAAAAATCATATTTTAACCCTCA
* * * * *
30490927 AACTTTTCAAAAATTATATTTTGACCTTTA
1 AACTTTCCAAAAATCATATTTTAACCCTCA
* *
30490957 AACTTTCTAAAAATCATATTTTGACCC-CA
1 AACTTTCCAAAAATCATATTTTAACCCTCA
* * * * *
30490986 AACTTTCTAAAAATTACATTTTAACCCCCG
1 AACTTTCCAAAAATCATATTTTAACCCTCA
* * * * *
30491016 AAC-TTCTTAAAAATTACATTTTTACCCTTA
1 AACTTTC-CAAAAATCATATTTTAACCCTCA
*
30491046 AATTTTCCAAAAATCATATTTTAA-CCTCCA
1 AACTTTCCAAAAATCATATTTTAACCCT-CA
* * * *
30491076 AACTTTCCAAAAATTACATTTTTACTCCTTA
1 AACTTTCCAAAAATCATATTTTAAC-CCTCA
* * * * *
30491107 AACTTT-TAGAAATTACATTTTTACCCT-A
1 AACTTTCCAAAAATCATATTTTAACCCTCA
30491135 AAC-TTCCAAAAAT
1 AACTTTCCAAAAAT
30491148 TACATTTTTA
Statistics
Matches: 179, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
27 2 0.01
28 9 0.05
29 34 0.19
30 121 0.68
31 10 0.06
32 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (30 bp):
AACTTTCCAAAAATCATATTTTAACCCTCA
Found at i:30491058 original size:89 final size:87
Alignment explanation
Indices: 30490897--30491161 Score: 307
Period size: 89 Copynumber: 3.0 Consensus size: 87
30490887 AAGGTCCCTG
* * * * * *
30490897 AACTATCCAAAAATCATATTTTAACCCTCGAACTTTTCAAAAATTATATTTTGACCTTTAAACTT
1 AACTTTCCAAAAATTACATTTTAACCCTCGAACTTTT-AAAAATTACATTTTTACCCTTAAA-TT
* *
30490962 TCTAAAAATCATATTTTGACCCCA
64 TCCAAAAATCATATTTTAACCCCA
* *
30490986 AACTTTCTAAAAATTACATTTTAACCCCCGAACTTCTTAAAAATTACATTTTTACCCTTAAATTT
1 AACTTTCCAAAAATTACATTTTAACCCTCGAACTT-TTAAAAATTACATTTTTACCCTTAAA-TT
30491051 TCCAAAAATCATATTTTAACCTCCA
64 TCCAAAAATCATATTTTAACC-CCA
* ** * *
30491076 AACTTTCCAAAAATTACATTTTTACTCCTTAAACTTTTAGAAATTACATTTTTACCC-TAAACTT
1 AACTTTCCAAAAATTACATTTTAAC-CCTCGAACTTTTAAAAATTACATTTTTACCCTTAAATTT
* * *
30491140 CCAAAAATTACATTTTTACCCC
65 CCAAAAATCATATTTTAACCCC
30491162 CGAGTGTCCA
Statistics
Matches: 152, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
87 2 0.01
88 19 0.12
89 76 0.50
90 48 0.32
91 7 0.05
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (87 bp):
AACTTTCCAAAAATTACATTTTAACCCTCGAACTTTTAAAAATTACATTTTTACCCTTAAATTTC
CAAAAATCATATTTTAACCCCA
Found at i:30491080 original size:60 final size:59
Alignment explanation
Indices: 30490897--30491160 Score: 223
Period size: 60 Copynumber: 4.5 Consensus size: 59
30490887 AAGGTCCCTG
* * * * * * * * **
30490897 AACTATCCAAAAATCATATTTTAACCCTCGAACTTTTCAAAAATTATATTTTGACCTTTA
1 AACTTTCCAAAAATTACATTTTTACCCT-TAAATTTTCAAAAATTACATTTTAACCTCCA
* * * * * * * *
30490957 AACTTTCTAAAAATCATATTTTGACCC-CAAACTTTCTAAAAATTACATTTTAACCCCCG
1 AACTTTCCAAAAATTACATTTTTACCCTTAAATTTTC-AAAAATTACATTTTAACCTCCA
* * *
30491016 AAC-TTCTTAAAAATTACATTTTTACCCTTAAATTTTCCAAAAATCATATTTTAACCTCCA
1 AACTTTC-CAAAAATTACATTTTTACCCTTAAATTTT-CAAAAATTACATTTTAACCTCCA
* * *
30491076 AACTTTCCAAAAATTACATTTTTACTCCTTAAACTTTT-AGAAATTACATTTTTACC-CTA
1 AACTTTCCAAAAATTACATTTTTAC-CCTTAAA-TTTTCAAAAATTACATTTTAACCTCCA
30491135 AAC-TTCCAAAAATTACATTTTTACCC
1 AACTTTCCAAAAATTACATTTTTACCC
30491161 CCGAGTGTCC
Statistics
Matches: 170, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
57 2 0.01
58 30 0.18
59 41 0.24
60 82 0.48
61 11 0.06
62 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (59 bp):
AACTTTCCAAAAATTACATTTTTACCCTTAAATTTTCAAAAATTACATTTTAACCTCCA
Found at i:30502886 original size:209 final size:209
Alignment explanation
Indices: 30502513--30503452 Score: 1458
Period size: 209 Copynumber: 4.5 Consensus size: 209
30502503 TACGATTATC
* * *
30502513 CAAAACAA-TGATACGGTCATCTTTCTGATGAGATACTGAGAAGTAGACCAAATAAATGAAACCA
1 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
* *
30502577 AGCTCAAAGTAAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
66 AGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
*
30502642 AATAAAGCGATTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGAC
131 AATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGAC
30502707 ACAGAGAAGTGGAT
196 ACAGAGAAGTGGAT
* * *
30502721 CAAAACAAGTGATGCGGTCATCTTCCTAATGAGATACTGAGAAGTAGACTAAATCAATGAAATCA
1 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
* * *
30502786 AGCTCAAAGTGAGCAAATCTTTGAACGCC-AGCTTCCTGATAAGATACTGAGAAGCAGGTTGAAG
66 AGCTCAAAGTGAGCAAATCTTCGAAC-CCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
* * * * *
30502850 CAATAAAGCAGTTACCTTCATGATGAGATACAGAGAAGTGAACCAGAT-TCATATTCTTGATGAG
130 CAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCT-GTCTTCCTGATGAG
30502914 ACACAGAGAAGTGGAT
194 ACACAGAGAAGTGGAT
30502930 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
1 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
* * *
30502995 AGCTCAAAGTCAGCAAATCTTCAAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
66 AGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
* * * * *
30503060 AAGAAAGCGGTTACCTTCCTGATGAGATACTGAGAAGTGAACCAGATCCGTCTTTCTTATGAGAC
131 AATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGAC
*
30503125 ATAGAGAAGTGGAT
196 ACAGAGAAGTGGAT
* *
30503139 CAAAACAAGTGATGCGGTCATCTTCCTGATAAGATACTAAGAAGTAGACCAAATCAATGAAACCA
1 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
* * *
30503204 GGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAAC
66 AGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
* * * * *
30503269 AATAAAGTGGCTACCTTCCTAATGAGATACAAAGAAGTGAACCAGATCTTTCTTCCTGATGAGAC
131 AATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGAC
30503334 ACAGAGAAGTGGAT
196 ACAGAGAAGTGGAT
* * *
30503348 CAAAAGAAGTTATGC-G-CATTTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
1 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
* *
30503411 GGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTAATGA
66 AGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGA
30503453 AAACAGATCT
Statistics
Matches: 666, Mismatches: 61, Indels: 11
0.90 0.08 0.01
Matches are distributed among these distances:
207 85 0.13
208 12 0.02
209 567 0.85
210 2 0.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22
Consensus pattern (209 bp):
CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
AGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
AATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGAC
ACAGAGAAGTGGAT
Found at i:30504196 original size:30 final size:30
Alignment explanation
Indices: 30504157--30504386 Score: 221
Period size: 30 Copynumber: 7.7 Consensus size: 30
30504147 AAGGTCTCTG
* * * *
30504157 AACTGTCCAAAAATCATATTTTGACCCCCG
1 AACTTTCCAAAAATCACATTTTAACCCCCA
* *
30504187 AACTTTCCAAAAATTACATTTTAACCCTCA
1 AACTTTCCAAAAATCACATTTTAACCCCCA
* * *
30504217 AACTTTCCAAAAATCATATTTTGACCCCCG
1 AACTTTCCAAAAATCACATTTTAACCCCCA
* ***
30504247 AACTTTCCAAAAATTACATTTTAACCCTTG
1 AACTTTCCAAAAATCACATTTTAACCCCCA
* * * *
30504277 AACTTCCCAAAAATTACATTTTTACCCTCA
1 AACTTTCCAAAAATCACATTTTAACCCCCA
* *
30504307 AATTTTCC-AAAATCATATTTTAACCCCCA
1 AACTTTCCAAAAATCACATTTTAACCCCCA
* * * * *
30504336 AACTTTCCAATAATTACATTTTTACCGCTA
1 AACTTTCCAAAAATCACATTTTAACCCCCA
*
30504366 AACTTT-CAAAAATCATATTTT
1 AACTTTCCAAAAATCACATTTT
30504387 TGCCCCTTAG
Statistics
Matches: 163, Mismatches: 36, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
29 36 0.22
30 127 0.78
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (30 bp):
AACTTTCCAAAAATCACATTTTAACCCCCA
Found at i:30504255 original size:60 final size:60
Alignment explanation
Indices: 30504157--30504345 Score: 254
Period size: 60 Copynumber: 3.2 Consensus size: 60
30504147 AAGGTCTCTG
*
30504157 AACTGTCCAAAAATCATATTTTGACCCCCGAACTTTCCAAAAATTACATTTTAACCCTCA
1 AACTTTCCAAAAATCATATTTTGACCCCCGAACTTTCCAAAAATTACATTTTAACCCTCA
**
30504217 AACTTTCCAAAAATCATATTTTGACCCCCGAACTTTCCAAAAATTACATTTTAACCCTTG
1 AACTTTCCAAAAATCATATTTTGACCCCCGAACTTTCCAAAAATTACATTTTAACCCTCA
* * * * * * * * * *
30504277 AACTTCCCAAAAATTACATTTTTACCCTCAAATTTTCC-AAAATCATATTTTAACCCCCA
1 AACTTTCCAAAAATCATATTTTGACCCCCGAACTTTCCAAAAATTACATTTTAACCCTCA
30504336 AACTTTCCAA
1 AACTTTCCAA
30504346 TAATTACATT
Statistics
Matches: 113, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 25 0.22
60 88 0.78
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.32
Consensus pattern (60 bp):
AACTTTCCAAAAATCATATTTTGACCCCCGAACTTTCCAAAAATTACATTTTAACCCTCA
Found at i:30504314 original size:90 final size:89
Alignment explanation
Indices: 30504156--30504357 Score: 287
Period size: 90 Copynumber: 2.3 Consensus size: 89
30504146 GAAGGTCTCT
* * * * *
30504156 GAACTGTCCAAAAATCATATTTTGACCCCCGAACTTTCCAAAAATTACATTTTAACCCTCAAACT
1 GAACTTTCCAAAAATTACATTTTAACCCCCGAACTTCCCAAAAATTACATTTTAACCCTCAAACT
*
30504221 TTCCAAAAATCATATTTTGACCCCC
66 TTCC-AAAATCATATTTTAACCCCC
** * *
30504246 GAACTTTCCAAAAATTACATTTTAACCCTTGAACTTCCCAAAAATTACATTTTTACCCTCAAATT
1 GAACTTTCCAAAAATTACATTTTAACCCCCGAACTTCCCAAAAATTACATTTTAACCCTCAAACT
30504311 TTCCAAAATCATATTTTAACCCCC
66 TTCCAAAATCATATTTTAACCCCC
* *
30504335 AAACTTTCCAATAATTACATTTT
1 GAACTTTCCAAAAATTACATTTT
30504358 TACCGCTAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 40 0.40
90 60 0.60
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (89 bp):
GAACTTTCCAAAAATTACATTTTAACCCCCGAACTTCCCAAAAATTACATTTTAACCCTCAAACT
TTCCAAAATCATATTTTAACCCCC
Found at i:30504351 original size:59 final size:60
Alignment explanation
Indices: 30504157--30504420 Score: 241
Period size: 60 Copynumber: 4.5 Consensus size: 60
30504147 AAGGTCTCTG
* * * * * * *
30504157 AACTGTCCAAAAATCATATTTTGACCCCCGAACTTTCCAAAAATTACATTTTAACCCTCA
1 AACTTTCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAAATCACATTTTAACCCTCA
* * * * * * **
30504217 AACTTTCCAAAAATCATATTTTGACCCCCGAACTTTCCAAAAATTACATTTTAACCCTTG
1 AACTTTCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAAATCACATTTTAACCCTCA
* * * *
30504277 AACTTCCCAAAAATTACATTTTTACCCTCAAATTTTCC-AAAATCATATTTTAACCCCCA
1 AACTTTCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAAATCACATTTTAACCCTCA
* * ** *
30504336 AACTTTCCAATAATTACATTTTTACCGCT-AAACTTT-CAAAAATCATATTTTTGCCC-CT
1 AACTTTCCAAAAATTACATTTTTACC-CTCAAACTTTCCAAAAATCACATTTTAACCCTCA
* *
30504394 TAGTTTCCAAAAATTACCA-TTTTACCC
1 AACTTTCCAAAAATTA-CATTTTTACCC
30504421 CCCGAGTGTC
Statistics
Matches: 177, Mismatches: 24, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
57 1 0.01
58 22 0.12
59 64 0.36
60 90 0.51
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.34
Consensus pattern (60 bp):
AACTTTCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAAATCACATTTTAACCCTCA
Found at i:30504417 original size:89 final size:90
Alignment explanation
Indices: 30504187--30504407 Score: 261
Period size: 89 Copynumber: 2.5 Consensus size: 90
30504177 TTGACCCCCG
* * * * * *
30504187 AACTTTCCAAAAATTACATTTTAACCCTCAAACTTTCCAAAAATCATATTTTGACCCCCGAACTT
1 AACTTCCCAAAAATCACATTTTTACCCTCAAAGTTTCCAAAAATCATATTTTAACCCCCAAACTT
*
30504252 TCCAAAAATTACATTTTAACCCTTG
66 TCCAAAAATTACATTTTAACCCTTA
* *
30504277 AACTTCCCAAAAATTACATTTTTACCCTCAAATTTTCC-AAAATCATATTTTAACCCCCAAACTT
1 AACTTCCCAAAAATCACATTTTTACCCTCAAAGTTTCCAAAAATCATATTTTAACCCCCAAACTT
* *
30504341 TCCAATAATTACATTTTTACCGC-TA
66 TCCAAAAATTACATTTTAACC-CTTA
* * * **
30504366 AACTT-TCAAAAATCATATTTTTGCCC-CTTAGTTTCCAAAAAT
1 AACTTCCCAAAAATCACATTTTTACCCTCAAAGTTTCCAAAAAT
30504408 TACCATTTTA
Statistics
Matches: 114, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
87 7 0.06
88 22 0.19
89 49 0.43
90 36 0.32
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (90 bp):
AACTTCCCAAAAATCACATTTTTACCCTCAAAGTTTCCAAAAATCATATTTTAACCCCCAAACTT
TCCAAAAATTACATTTTAACCCTTA
Found at i:30509381 original size:21 final size:21
Alignment explanation
Indices: 30509357--30509404 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
30509347 CTTTTTTCGA
30509357 TAGAAGAGTCACTTGTATCGG
1 TAGAAGAGTCACTTGTATCGG
**
30509378 TAGAACTGTCACTTGTATCGG
1 TAGAAGAGTCACTTGTATCGG
30509399 TAGAAG
1 TAGAAG
30509405 TCTGCACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (21 bp):
TAGAAGAGTCACTTGTATCGG
Found at i:30515196 original size:2 final size:2
Alignment explanation
Indices: 30515189--30515274 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
30515179 TTTGTATGTA
30515189 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
30515231 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
30515273 TG
1 TG
30515275 AGAGAGAGAG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:30515279 original size:2 final size:2
Alignment explanation
Indices: 30515274--30515298 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30515264 GTGTGTGTGT
30515274 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
30515299 TTGAAATGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:30518843 original size:29 final size:29
Alignment explanation
Indices: 30518811--30518870 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
30518801 ATATCTAGGT
30518811 AGGTTTTGTTGTGAGAAGGAACCATGGAA
1 AGGTTTTGTTGTGAGAAGGAACCATGGAA
30518840 AGGTTTTGTTGTGAGAAGGAACCATGGAA
1 AGGTTTTGTTGTGAGAAGGAACCATGGAA
30518869 AG
1 AG
30518871 CTGGTATAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.07, G:0.35, T:0.27
Consensus pattern (29 bp):
AGGTTTTGTTGTGAGAAGGAACCATGGAA
Found at i:30519657 original size:24 final size:24
Alignment explanation
Indices: 30519630--30519704 Score: 98
Period size: 24 Copynumber: 3.2 Consensus size: 24
30519620 AACGAATATA
*
30519630 TTCATGAACATATAATTGAACATG
1 TTCATGAATATATAATTGAACATG
* ** *
30519654 TTCACGAATAT-TAAACGAATATG
1 TTCATGAATATATAATTGAACATG
30519677 TTCATGAATATATAATTGAACATG
1 TTCATGAATATATAATTGAACATG
30519701 TTCA
1 TTCA
30519705 CAAACAATGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 19 0.46
24 22 0.54
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (24 bp):
TTCATGAATATATAATTGAACATG
Found at i:30519670 original size:47 final size:47
Alignment explanation
Indices: 30519601--30519705 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
30519591 AACTCAATCA
*
30519601 AACATGATCACGAATATTAAACGAATATATTCATGAACATATAATTG
1 AACATGTTCACGAATATTAAACGAATATATTCATGAACATATAATTG
* *
30519648 AACATGTTCACGAATATTAAACGAATATGTTCATGAATATATAATTG
1 AACATGTTCACGAATATTAAACGAATATATTCATGAACATATAATTG
30519695 AACATGTTCAC
1 AACATGTTCAC
30519706 AAACAATGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (47 bp):
AACATGTTCACGAATATTAAACGAATATATTCATGAACATATAATTG
Found at i:30519677 original size:23 final size:24
Alignment explanation
Indices: 30519601--30519705 Score: 97
Period size: 23 Copynumber: 4.5 Consensus size: 24
30519591 AACTCAATCA
*
30519601 AACATGATCACGAATAT-TAAACG
1 AACATGTTCACGAATATATAAACG
* * * * **
30519624 AATATATTCATGAACATATAATTG
1 AACATGTTCACGAATATATAAACG
30519648 AACATGTTCACGAATAT-TAAACG
1 AACATGTTCACGAATATATAAACG
* * **
30519671 AATATGTTCATGAATATATAATTG
1 AACATGTTCACGAATATATAAACG
30519695 AACATGTTCAC
1 AACATGTTCAC
30519706 AAACAATGTT
Statistics
Matches: 61, Mismatches: 19, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
23 31 0.51
24 30 0.49
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (24 bp):
AACATGTTCACGAATATATAAACG
Found at i:30519744 original size:22 final size:22
Alignment explanation
Indices: 30519716--30519759 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
30519706 AAACAATGTT
30519716 AATAAAT-AATAAACAAACAATA
1 AATAAATAAATAAACAAA-AATA
*
30519738 AATAAATAAATACACAAAAATA
1 AATAAATAAATAAACAAAAATA
30519760 TTATTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (22 bp):
AATAAATAAATAAACAAAAATA
Found at i:30519824 original size:12 final size:12
Alignment explanation
Indices: 30519795--30519848 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
30519785 ATCATTAATA
*
30519795 AATAAATGAGTC
1 AATAAACGAGTC
30519807 -ATAAACGAGTC
1 AATAAACGAGTC
30519818 AATAAACGAG-C
1 AATAAACGAGTC
*
30519829 TTATAAACGAGTC
1 -AATAAACGAGTC
30519842 AATAAAC
1 AATAAAC
30519849 AAGCTTGTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 11 0.31
12 24 0.67
13 1 0.03
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:30519836 original size:24 final size:24
Alignment explanation
Indices: 30519807--30519854 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
30519797 TAAATGAGTC
*
30519807 ATAAACGAGTCAATAAACGAGCTT
1 ATAAACGAGTCAATAAACAAGCTT
30519831 ATAAACGAGTCAATAAACAAGCTT
1 ATAAACGAGTCAATAAACAAGCTT
30519855 GTTCGTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATAAACGAGTCAATAAACAAGCTT
Found at i:30525525 original size:90 final size:90
Alignment explanation
Indices: 30525372--30525557 Score: 232
Period size: 90 Copynumber: 2.1 Consensus size: 90
30525362 CCCACCATTA
* * * ** * *
30525372 GAATTTTCATTAATCACGTCACCTGCTAACGTGTTTTTTCTAAGATTTTCCAGCAAGTTAGCTAA
1 GAATTTTCATTAAACACGGCACCTACTAACGTGTTTTAGCTAAGATTATCCAGCAAGCTAGCTAA
*
30525437 TTTCCCTCCCTCAATTACTCCCAAG
66 TTTCCCTCCCTCAACTACTCCCAAG
* *
30525462 GAATTTTCATTAAACACGGCACCTACTAGCGTGTTCTTAGC-AAGATTATCCAGTGAA-CTAGCT
1 GAATTTTCATTAAACACGGCACCTACTAACGTGTT-TTAGCTAAGATTATCCAG-CAAGCTAGCT
* *
30525525 AATTTCCTTCCCTTAACTACTCCCAAG
64 AATTTCCCTCCCTCAACTACTCCCAAG
30525552 GAATTT
1 GAATTT
30525558 GAATCCCTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
90 77 0.94
91 5 0.06
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.34
Consensus pattern (90 bp):
GAATTTTCATTAAACACGGCACCTACTAACGTGTTTTAGCTAAGATTATCCAGCAAGCTAGCTAA
TTTCCCTCCCTCAACTACTCCCAAG
Found at i:30526817 original size:14 final size:14
Alignment explanation
Indices: 30526798--30526830 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
30526788 CAAAACTTCG
30526798 AATCTTAAATCTCA
1 AATCTTAAATCTCA
*
30526812 AATCTTAAATCTCG
1 AATCTTAAATCTCA
30526826 AATCT
1 AATCT
30526831 CAAGATTTAA
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:0.39, C:0.21, G:0.03, T:0.36
Consensus pattern (14 bp):
AATCTTAAATCTCA
Found at i:30526938 original size:20 final size:22
Alignment explanation
Indices: 30526902--30526945 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
30526892 AGGTTTAGGA
*
30526902 TTTAAGGATTTAAAGTT-TGAG
1 TTTAAGGATTCAAAGTTATGAG
30526923 TTTAAGG-TTCAAAGTTATGAG
1 TTTAAGGATTCAAAGTTATGAG
30526944 TT
1 TT
30526946 GCAAGTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (22 bp):
TTTAAGGATTCAAAGTTATGAG
Found at i:30526975 original size:20 final size:22
Alignment explanation
Indices: 30526950--30526995 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
30526940 TGAGTTGCAA
30526950 GTTTAAGATTCAA-GGTTTG-G
1 GTTTAAGATTCAAGGGTTTGTG
*
30526970 GTTTAAGGTTCAAGGGTTTGTG
1 GTTTAAGATTCAAGGGTTTGTG
30526992 GTTT
1 GTTT
30526996 GGGTTTAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 6 0.26
22 5 0.22
ACGTcount: A:0.20, C:0.04, G:0.33, T:0.43
Consensus pattern (22 bp):
GTTTAAGATTCAAGGGTTTGTG
Done.