Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 94 of 310
Found at i:30050094 original size:30 final size:30
Alignment explanation
Indices: 30050058--30050185 Score: 229
Period size: 30 Copynumber: 4.3 Consensus size: 30
30050048 AGGTGCAAGT
*
30050058 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
30050088 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
30050118 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
30050148 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
30050178 GGTGGTGG
1 GGTGGTGG
30050186 CAAAGGCTAG
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 96 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:30051066 original size:18 final size:19
Alignment explanation
Indices: 30051037--30051072 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30051027 ACGTAAAACA
*
30051037 AATTTCAAAATAATTAATT
1 AATTTCAAAATAAATAATT
30051056 AATTT-AAAATAAATAAT
1 AATTTCAAAATAAATAAT
30051073 GAGAAAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTTCAAAATAAATAATT
Found at i:30052460 original size:29 final size:30
Alignment explanation
Indices: 30052414--30052484 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
30052404 TTCTGGGGCT
*
30052414 AAATGTAATTTTTAGAAAATTTA-GGGT-TA
1 AAATGTAA-TTTAAGAAAATTTAGGGGTCTA
*
30052443 AAATGTAATTTAAGGAAAGTTTAGGGGTCTA
1 AAATGTAATTTAA-GAAAATTTAGGGGTCTA
*
30052474 AGATGTAATTT
1 AAATGTAATTT
30052485 TTTTTGAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 4 0.11
29 16 0.44
30 4 0.11
31 12 0.33
ACGTcount: A:0.39, C:0.01, G:0.21, T:0.38
Consensus pattern (30 bp):
AAATGTAATTTAAGAAAATTTAGGGGTCTA
Found at i:30053055 original size:75 final size:77
Alignment explanation
Indices: 30052833--30053151 Score: 400
Period size: 75 Copynumber: 4.1 Consensus size: 77
30052823 TTTTTTTATT
* * * * * *
30052833 TTTTTTTGAAAAATAGAAATTGAAAATACCTTAGGGCGTGAT-TTGAGGTTCTACTCACCTCTCG
1 TTTTTTTGAAAGACAGAAATTGAAAATACCTCA-GACGTGATCTTGAGGCTCAACTCACCTCTCG
30052897 CAATATGAGTTGATTGA
65 CAATATGA---G-TTGA
* * * * *
30052914 TTTTTTTGAAA-AGTAGAAATTAAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTC
1 TTTTTTTGAAAGA-CAGAAATTGAAAATACCTCAG-ACGTGATCTTGAGGCTCAACTCACCTCTC
30052977 GCAATATGAGTTGA
64 GCAATATGAGTTGA
**
30052991 TTTTTTTGAAAGACAGAAATTGAAAATACCTCA-ACGTG-TCTTGAGGCTCAACTCATTTCTCGC
1 TTTTTTTGAAAGACAGAAATTGAAAATACCTCAGACGTGATCTTGAGGCTCAACTCACCTCTCGC
30053054 AATATGAGTTGA
66 AATATGAGTTGA
*
30053066 TTTTTTTGAAAGACAAAAATTGAAAATACCTCA-ACGTG-TCTTGAGGCTCAACTCACCTCTCGC
1 TTTTTTTGAAAGACAGAAATTGAAAATACCTCAGACGTGATCTTGAGGCTCAACTCACCTCTCGC
30053129 AATATGAGTTGA
66 AATATGAGTTGA
30053141 TTTTTTTGAAA
1 TTTTTTTGAAA
30053152 TAGAAATAAA
Statistics
Matches: 215, Mismatches: 18, Indels: 16
0.86 0.07 0.06
Matches are distributed among these distances:
74 1 0.00
75 118 0.55
77 33 0.15
78 2 0.01
80 2 0.01
81 59 0.27
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (77 bp):
TTTTTTTGAAAGACAGAAATTGAAAATACCTCAGACGTGATCTTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGA
Found at i:30065881 original size:18 final size:18
Alignment explanation
Indices: 30065857--30065897 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
30065847 AAAATAAAAT
*
30065857 AAAAAAAATCTAAAGAAAG
1 AAAAAAAA-CCAAAGAAAG
*
30065876 AAAAAAAACCAAGGAAAG
1 AAAAAAAACCAAAGAAAG
30065894 AAAA
1 AAAA
30065898 TATGAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.76, C:0.07, G:0.12, T:0.05
Consensus pattern (18 bp):
AAAAAAAACCAAAGAAAG
Found at i:30066478 original size:29 final size:30
Alignment explanation
Indices: 30066433--30066503 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
30066423 TTTGGGGCTC
* *
30066433 AATGTAATTTTTAGAAAATTTGGGGT-TAA
1 AATGTAATTTTAAGAAAATTTAGGGTCTAA
*
30066462 AATGTAA-TTTAAGGAAAGTTTAGGGTCTAA
1 AATGTAATTTTAA-GAAAATTTAGGGTCTAA
*
30066492 GATGTAAATTTT
1 AATGT-AATTTT
30066504 TTTTGAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 4 0.12
29 18 0.53
30 7 0.21
31 2 0.06
32 3 0.09
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.39
Consensus pattern (30 bp):
AATGTAATTTTAAGAAAATTTAGGGTCTAA
Found at i:30068049 original size:14 final size:14
Alignment explanation
Indices: 30068030--30068068 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
30068020 CATCAATATA
30068030 CATCAATGCATTAT
1 CATCAATGCATTAT
30068044 CATCAAT--A-TAT
1 CATCAATGCATTAT
30068055 -ATCAATGCATTAT
1 CATCAATGCATTAT
30068068 C
1 C
30068069 TATAATGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 8
0.72 0.00 0.28
Matches are distributed among these distances:
10 6 0.29
11 3 0.14
12 2 0.10
13 3 0.14
14 7 0.33
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (14 bp):
CATCAATGCATTAT
Found at i:30068051 original size:24 final size:24
Alignment explanation
Indices: 30068019--30068068 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
30068009 CAAAAGGATG
30068019 TCATCAATATACATCAATGCATTA
1 TCATCAATATACATCAATGCATTA
*
30068043 TCATCAATATATATCAATGCATTA
1 TCATCAATATACATCAATGCATTA
30068067 TC
1 TC
30068069 TATAATGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (24 bp):
TCATCAATATACATCAATGCATTA
Found at i:30070852 original size:25 final size:25
Alignment explanation
Indices: 30070805--30070899 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
30070795 TATGCTCATA
*
30070805 CGAGCTGTA-AACGGTAAGCTCCTC
1 CGAGCTGAATAACGGTAAGCTCCTC
*
30070829 CGAGCTGAATAACGGTAAGTTCCTC
1 CGAGCTGAATAACGGTAAGCTCCTC
* ** * *
30070854 CAAGCTGAATAATAGTAAGCTCATA
1 CGAGCTGAATAACGGTAAGCTCCTC
* *
30070879 CGAGCTGAGTATCGGTAAGCT
1 CGAGCTGAATAACGGTAAGCT
30070900 TATAAGAGCT
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
24 8 0.14
25 49 0.86
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (25 bp):
CGAGCTGAATAACGGTAAGCTCCTC
Found at i:30070908 original size:25 final size:24
Alignment explanation
Indices: 30070868--30070920 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
30070858 CTGAATAATA
* *
30070868 GTAAGCTCATACGAGCTGAGTATCG
1 GTAAGCTCATAAGAGCTGA-AATCG
*
30070893 GTAAGCTTATAAGAGCTGAAATCG
1 GTAAGCTCATAAGAGCTGAAATCG
30070917 GTAA
1 GTAA
30070921 CCCTAATGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (24 bp):
GTAAGCTCATAAGAGCTGAAATCG
Found at i:30073161 original size:3 final size:3
Alignment explanation
Indices: 30073153--30073178 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30073143 ATACGCAGTT
30073153 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
30073179 TATGTCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30074056 original size:29 final size:28
Alignment explanation
Indices: 30074019--30074107 Score: 82
Period size: 29 Copynumber: 3.3 Consensus size: 28
30074009 TGAATAAAAA
30074019 AATAATTATCATATATAGAATGTGTGTAG
1 AATAATTATCATATATAGAATGT-TGTAG
* *
30074048 AAT-ATT-T-ATATTTAGAA---TATAG
1 AATAATTATCATATATAGAATGTTGTAG
*
30074070 AATAATTATCATATATGGAATGTATGTAG
1 AATAATTATCATATATAGAATGT-TGTAG
*
30074099 AATATTTAT
1 AATAATTAT
30074108 ATAGAGAGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
22 7 0.15
23 3 0.06
24 1 0.02
25 8 0.17
26 9 0.19
27 1 0.02
28 3 0.06
29 15 0.32
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.42
Consensus pattern (28 bp):
AATAATTATCATATATAGAATGTTGTAG
Found at i:30079961 original size:34 final size:33
Alignment explanation
Indices: 30079865--30080006 Score: 94
Period size: 34 Copynumber: 4.3 Consensus size: 33
30079855 AGAAAATATA
* *
30079865 AAAATAAAATATTTGAAATATTTTT-ATATAATTC
1 AAAATAAAACATTT-AAAT-TTTTTAATATAATTT
* * * ***
30079899 AATATAAAATATTT-CATTTCAAAATATAATTT
1 AAAATAAAACATTTAAATTTTTTAATATAATTT
30079931 AAAATAAAACATTTTAAATTTTTTAATATAA-TT
1 AAAATAAAACA-TTTAAATTTTTTAATATAATTT
* ** *
30079964 AAATATGAATACA-AAAAATATTTTAATATAATTT
1 AAA-AT-AAAACATTTAAATTTTTTAATATAATTT
*
30079998 AATATAAAA
1 AAAATAAAA
30080007 ATAATTATAT
Statistics
Matches: 84, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
31 2 0.02
32 22 0.26
33 25 0.30
34 30 0.36
35 5 0.06
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (33 bp):
AAAATAAAACATTTAAATTTTTTAATATAATTT
Found at i:30085390 original size:21 final size:20
Alignment explanation
Indices: 30085362--30085400 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
30085352 TCTGACATAG
*
30085362 GGGCACACGCCCGTGTGAAA
1 GGGCACACGCCCATGTGAAA
30085382 GGGCAACACGCCCATGTGA
1 GGGC-ACACGCCCATGTGA
30085401 CCATTTCGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.31, G:0.33, T:0.10
Consensus pattern (20 bp):
GGGCACACGCCCATGTGAAA
Found at i:30086695 original size:46 final size:45
Alignment explanation
Indices: 30086645--30086760 Score: 146
Period size: 47 Copynumber: 2.5 Consensus size: 45
30086635 TAGCCGACGG
* * *
30086645 ATGTCTCAGACATGTCTTACACTGGCTTACATC-CA-GTGGCTGATGC
1 ATGTCCCAGACATGTCTTACACTGG-TT-C-TCGAATGTGGCCGATGC
30086691 ATGTCCCAGACATGTTCTTACACTGGTTCTCGTAATGTGGCCGATGC
1 ATGTCCCAGACATG-TCTTACACTGGTTCTCG-AATGTGGCCGATGC
30086738 ATGTCCCAGACATGTCTTACACT
1 ATGTCCCAGACATGTCTTACACT
30086761 AGCTCACACA
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
44 2 0.03
45 1 0.02
46 25 0.40
47 35 0.56
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (45 bp):
ATGTCCCAGACATGTCTTACACTGGTTCTCGAATGTGGCCGATGC
Found at i:30099793 original size:46 final size:46
Alignment explanation
Indices: 30099740--30099865 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
30099730 GGATAACTTG
* *
30099740 TAAGTGAACTCGGATTCAACTCAACGAGCTCGGACGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCA
* *
30099786 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCA
*
30099832 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
30099866 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCA
Found at i:30102604 original size:47 final size:48
Alignment explanation
Indices: 30102529--30102750 Score: 197
Period size: 47 Copynumber: 4.7 Consensus size: 48
30102519 TTGTTAAGGC
* *
30102529 GCCGATGCCATGTCCTAGACACGGTCTTACACTGGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
* * * * * *
30102576 GTCGAAGCCATATCCCAGACATGGTCTTACACTGACTCACATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
* * * * * *
30102624 GCCGACG-CATGTCCTAGACAT-GTCTTACACTGGCTTATGTCCCGAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
* * * * *
30102670 GCCGATG-CATATCCCGGACAT-GTCTTACACTAGCAC-TCGTCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCGAA
*
30102715 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGG
30102751 TTCTTGTAAT
Statistics
Matches: 138, Mismatches: 32, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
45 2 0.01
46 57 0.41
47 62 0.45
48 17 0.12
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
Found at i:30102728 original size:93 final size:93
Alignment explanation
Indices: 30102529--30102750 Score: 229
Period size: 93 Copynumber: 2.4 Consensus size: 93
30102519 TTGTTAAGGC
* * *
30102529 GCCGATGCCATGTCCTAGACACGGTCTTACACTGGCTCATATCTCAAGTCGAAGCCATATCCCAG
1 GCCGATGCCATGTCCTAGACA-TGTCTTACACTGGCTCATATCCCAAGCCGAAGCCATATCCCAG
*
30102594 ACATGGTCTTACACTGACTCACATCTCGTA
65 ACATGGTCTTACACTGACT-ACATCTCATA
* * * * * *
30102624 GCCGACG-CATGTCCTAGACATGTCTTACACTGGCTTATGTCCCGATGCCGATG-CATATCCCGG
1 GCCGATGCCATGTCCTAGACATGTCTTACACTGGCTCATATCCC-AAGCCGAAGCCATATCCCAG
*
30102687 ACAT-GTCTTACACTAGCACT-CGTCTCA-A
65 ACATGGTCTTACACT-G-ACTACATCTCATA
* *
30102715 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGG
1 -GCCGATGCCATGTCCTAGACAT-GTCTTACACTGG
30102751 TTCTTGTAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
91 1 0.01
92 20 0.19
93 46 0.43
94 34 0.32
95 6 0.06
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (93 bp):
GCCGATGCCATGTCCTAGACATGTCTTACACTGGCTCATATCCCAAGCCGAAGCCATATCCCAGA
CATGGTCTTACACTGACTACATCTCATA
Found at i:30104583 original size:51 final size:51
Alignment explanation
Indices: 30104525--30104635 Score: 168
Period size: 51 Copynumber: 2.2 Consensus size: 51
30104515 ATGCTGATGG
30104525 CCCGTGTGACAAACACGACCTAAGCATCTAGGGACACGCCCGTGTCCCATA
1 CCCGTGTGACAAACACGACCTAAGCATCTAGGGACACGCCCGTGTCCCATA
* * * * * *
30104576 CCTGTGTGACACATACGGCCTAAGCATCTAGGGACATGCCCGTGTCCCATG
1 CCCGTGTGACAAACACGACCTAAGCATCTAGGGACACGCCCGTGTCCCATA
30104627 CCCGTGTGA
1 CCCGTGTGA
30104636 ATTAAATTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.19
Consensus pattern (51 bp):
CCCGTGTGACAAACACGACCTAAGCATCTAGGGACACGCCCGTGTCCCATA
Found at i:30105766 original size:49 final size:50
Alignment explanation
Indices: 30105700--30105828 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 50
30105690 CCATCAAGTT
* * * *
30105700 GATGCCGTGTCCTAGACATGGTCTTAGACTAACTATCA-AAATCAAG-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATC-AGTGAC
* * * * * *
30105749 GATGGCATGTCCCAGACATAGTCTTACACTAGCTCTCACATATCCGTGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATCAGTGAC
30105799 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
30105829 GACACCTATC
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
49 32 0.48
50 34 0.52
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATCAGTGAC
Found at i:30105914 original size:46 final size:48
Alignment explanation
Indices: 30105744--30106015 Score: 199
Period size: 46 Copynumber: 5.8 Consensus size: 48
30105734 ATCAAAATCA
* *
30105744 AGGCCGATGGCATGTCCCAGACATAGTCTTACACTAGCTCTCACATATCCG
1 AGGCCGAT-GCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATAT-CG
* * * *
30105795 -TGACGATGCCATGTCCCAGACATGGTCTTACACT-G-AC-ACCTATC-
1 AGGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTACATATCG
* * *
30105839 ATAGCCAATGCCTGTCCCAGACAT-GTCTTACACTGGCT-TACATATCG
1 A-GGCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCG
* * * * * *
30105886 AGGCCGATGCATGTCCCAGGCAT-TTCTTACACTAGCTCT-CGTCTCA
1 AGGCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCG
** *
30105932 ATACCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-G
1 AGGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCG
* * * *
30105980 TGGCAGATGCATGTCCTAGGCAT-GTCTTACACTGGC
1 AGGCCGATGCATGTCCCAGACATGGTCTTACACTGGC
30106016 ACACAAATAA
Statistics
Matches: 176, Mismatches: 34, Indels: 27
0.74 0.14 0.11
Matches are distributed among these distances:
44 10 0.06
45 15 0.09
46 70 0.40
47 27 0.15
48 22 0.12
49 3 0.02
50 29 0.16
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
AGGCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCG
Found at i:30105964 original size:94 final size:91
Alignment explanation
Indices: 30105746--30106013 Score: 269
Period size: 94 Copynumber: 2.9 Consensus size: 91
30105736 CAAAATCAAG
* * * *
30105746 GCCGATGGCATGTCCCAGACATAGTCTTACACTAGCTCTCACATATCCGTGACGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCT-ACATAT-CGGGCCGATG-CATGTCC
*
30105811 CAGACATGGTCTTACACTGACACCTATCATA
62 CAGGCAT-GTCTTACACTGACACCTATCATA
*
30105842 GCCAATGCC-TGTCCCAGACATGTCTTACACTGGCT-TACATATCGAGGCCGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTACATATCG-GGCCGATGCATGTCCCAG
* * *
30105905 GCATTTCTTACACT-AGCTCTCGTCTCAATA
65 GCATGTCTTACACTGA-CAC-C-TATC-ATA
* * *
30105935 -CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCAGATGCATGTCCT
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTACAT-ATCG-GGCCGATGCATGTCCC
30105997 AGGCATGTCTTACACTG
63 AGGCATGTCTTACACTG
30106014 GCACACAAAT
Statistics
Matches: 147, Mismatches: 15, Indels: 21
0.80 0.08 0.11
Matches are distributed among these distances:
89 1 0.01
90 11 0.07
91 16 0.11
92 22 0.15
93 15 0.10
94 60 0.41
95 15 0.10
96 7 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTACATATCGGGCCGATGCATGTCCCAGG
CATGTCTTACACTGACACCTATCATA
Found at i:30106009 original size:140 final size:141
Alignment explanation
Indices: 30105744--30106015 Score: 329
Period size: 140 Copynumber: 1.9 Consensus size: 141
30105734 ATCAAAATCA
**
30105744 AGGCCGATGGCATGTCCCAGACATAGTCTTACACTAGCTCTCACATATCCGTGACGATGCCATGT
1 AGGCCGATGGCATGTCCCAGACATAGTCTTACACTAGCTCT-ACATATCAATGACGATGCCATGT
* *
30105809 CCCAGACATGGTCTTACACTGACACCTATCATAGCCAATGCCTGTCCCAGACATGTCTTACACTG
65 CCCAGACATGGTCTTACACTGACACCTATAATAGCCAATGCATGTCCCAGACATGTCTTACACTG
30105874 GCTTACATATCG
130 GCTTACATATCG
* * * *
30105886 AGGCCGAT-GCATGTCCCAGGCAT-TTCTTACACTAGCTCT-CGTCTCAAT-ACCGATGCCATGT
1 AGGCCGATGGCATGTCCCAGACATAGTCTTACACTAGCTCTACATATCAATGA-CGATGCCATGT
* * * * * * *
30105947 CCTAGACATGGTCTTACACTGGC-TCTCATAATGTGGCAGATGCATGTCCTAGGCATGTCTTACA
65 CCCAGACATGGTCTTACACTGACACCT-ATAAT-AGCCA-ATGCATGTCCCAGACATGTCTTACA
30106011 CTGGC
127 CTGGC
30106016 ACACAAATAA
Statistics
Matches: 111, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
137 3 0.03
138 41 0.37
139 3 0.03
140 42 0.38
141 14 0.13
142 8 0.07
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (141 bp):
AGGCCGATGGCATGTCCCAGACATAGTCTTACACTAGCTCTACATATCAATGACGATGCCATGTC
CCAGACATGGTCTTACACTGACACCTATAATAGCCAATGCATGTCCCAGACATGTCTTACACTGG
CTTACATATCG
Found at i:30116492 original size:46 final size:47
Alignment explanation
Indices: 30116282--30116495 Score: 210
Period size: 46 Copynumber: 4.6 Consensus size: 47
30116272 GTGTCAATGC
* * *
30116282 CATGTCCCAGACATGGTCTTACACTGACAC-C-TCTC-GTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCAATGGCCGATG
* * * * *
30116327 CATGTCCTAGACATGTTTTACATTGGC-TTACATCTCGA-GGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCACT-CATCTCAATGGCCGATG
* * * *
30116373 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAAT-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCACTCATCTCAATGGCCGATG
30116419 CCATGTCCCAGACATGGTCTTACACTGGCACTCAT-T-ATATGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCA-ATGGCCGATG
*
30116467 CATGTCCCAGGCATGTCTTACACTGGCAC
1 CATGTCCCAGACATGTCTTACACTGGCAC
30116496 ACAAATAACC
Statistics
Matches: 139, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
44 10 0.07
45 14 0.10
46 62 0.45
47 30 0.22
48 23 0.17
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATCTCAATGGCCGATG
Found at i:30117592 original size:43 final size:43
Alignment explanation
Indices: 30117545--30117627 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
30117535 ATTTTTCACA
*
30117545 ATTAAGCATGAAATCGCTAAAATTAATTTACCAAAATTTTCAT
1 ATTAAGCATGAAATCGCTAAAATTAATTCACCAAAATTTTCAT
30117588 ATTAAGCATGAAATCGCTAAAATTAATTCACCAAAATTTT
1 ATTAAGCATGAAATCGCTAAAATTAATTCACCAAAATTTT
30117628 AATACTCTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (43 bp):
ATTAAGCATGAAATCGCTAAAATTAATTCACCAAAATTTTCAT
Found at i:30122360 original size:16 final size:18
Alignment explanation
Indices: 30122334--30122366 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30122324 TTAAATTAAC
30122334 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
30122351 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
30122367 CACAATTCTA
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:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:30130144 original size:26 final size:26
Alignment explanation
Indices: 30130114--30130273 Score: 293
Period size: 26 Copynumber: 6.2 Consensus size: 26
30130104 TGAAATTCCC
30130114 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30130140 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30130166 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30130192 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
30130218 ATCATGAAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
30130244 ATCATGGAACGTTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30130270 ATCA
1 ATCA
30130274 ATTTGTATCA
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 129 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30135162 original size:12 final size:12
Alignment explanation
Indices: 30135145--30135175 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
30135135 AGTACTACCT
*
30135145 CGGCCTTGACCA
1 CGGCCTCGACCA
30135157 CGGCCTCGACCA
1 CGGCCTCGACCA
30135169 CGGCCTC
1 CGGCCTC
30135176 TTCGCCGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.48, G:0.26, T:0.13
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:30146619 original size:58 final size:58
Alignment explanation
Indices: 30146549--30146663 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 58
30146539 ATCCTAAGAC
*
30146549 ACATTAAAGGTATCAATTAAGGGGATGCATGTCCCATGCAAGAAGACATTTGACTAAA
1 ACATTAAAGGTATCAATTAAGGGGATGCATGTCCCATACAAGAAGACATTTGACTAAA
30146607 ACATTAAAGGTATCAATTAAGGGGATGCATGTCCCATACAAGAAGACATTTGACTAA
1 ACATTAAAGGTATCAATTAAGGGGATGCATGTCCCATACAAGAAGACATTTGACTAA
30146664 GGGGATTGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (58 bp):
ACATTAAAGGTATCAATTAAGGGGATGCATGTCCCATACAAGAAGACATTTGACTAAA
Found at i:30147667 original size:28 final size:28
Alignment explanation
Indices: 30147636--30147691 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
30147626 AGTATGTGTT
30147636 ATTTTTGTTAATTAAAAATTTAAAAGTG
1 ATTTTTGTTAATTAAAAATTTAAAAGTG
30147664 ATTTTTGTTAATTAAAAATTTAAAAGTG
1 ATTTTTGTTAATTAAAAATTTAAAAGTG
30147692 TTAAAACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (28 bp):
ATTTTTGTTAATTAAAAATTTAAAAGTG
Found at i:30149756 original size:11 final size:13
Alignment explanation
Indices: 30149728--30149760 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
30149718 GGGACACAGC
30149728 GTGTGACACGACT
1 GTGTGACACGACT
*
30149741 GTGTGACACGATT
1 GTGTGACACGACT
30149754 GTGTGAC
1 GTGTGAC
30149761 CCAACTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.27
Consensus pattern (13 bp):
GTGTGACACGACT
Found at i:30156859 original size:41 final size:41
Alignment explanation
Indices: 30156813--30156952 Score: 174
Period size: 41 Copynumber: 3.4 Consensus size: 41
30156803 CTTAATTATA
*
30156813 CCCTGAATTACACATACGTGCCCATGTTTGTAATTCGGTAC
1 CCCTGAATTGCACATACGTGCCCATGTTTGTAATTCGGTAC
* * *
30156854 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGATAC
1 CCCTGAATTGCACATACGTGCCCATGTTTGTAATTCGGTAC
* * * * *
30156895 CCCTGAACTCCTCATACGTGCCCTTGTTTG-AACTTTGGTAC
1 CCCTGAATTGCACATACGTGCCCATGTTTGTAA-TTCGGTAC
*
30156936 CCTTGAATTGCACATAC
1 CCCTGAATTGCACATAC
30156953 ATGTCCCCAT
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 1 0.01
41 82 0.99
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.32
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCATGTTTGTAATTCGGTAC
Found at i:30156879 original size:21 final size:21
Alignment explanation
Indices: 30156813--30156879 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
30156803 CTTAATTATA
*
30156813 CCCTGAATTACACATACGTGC
1 CCCTGAATTGCACATACGTGC
* * * * *
30156834 CCATG-TTTGTA-ATTCGGTAC
1 CCCTGAATTGCACATAC-GTGC
30156854 CCCTGAATTGCACATACGTGC
1 CCCTGAATTGCACATACGTGC
30156875 CCCTG
1 CCCTG
30156880 TTTGTACTTC
Statistics
Matches: 32, Mismatches: 11, Indels: 6
0.65 0.22 0.12
Matches are distributed among these distances:
19 3 0.09
20 10 0.31
21 16 0.50
22 3 0.09
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.28
Consensus pattern (21 bp):
CCCTGAATTGCACATACGTGC
Found at i:30156978 original size:82 final size:81
Alignment explanation
Indices: 30156825--30156983 Score: 205
Period size: 82 Copynumber: 2.0 Consensus size: 81
30156815 CTGAATTACA
* * **
30156825 CATACGTGCCCATGTTTGTAATTCGGTACCCCTGAATTGCACATACGTGCCCCTGTTTGTACTTC
1 CATACGTGCCCATGTTTGTAATTCGGTACCCCTGAATTGCACATACATGCCCCTATTTGTACCAC
30156890 GATACCCCTGAACTCCT
66 GATACCCC-GAACTCCT
* * *
30156907 CATACGTGCCCTTGTTTG-AACTTTGGTACCCTTGAATTGCACATACATGTCCCC-ATTTGTACC
1 CATACGTGCCCATGTTTGTAA-TTCGGTACCCCTGAATTGCACATACATG-CCCCTATTTGTACC
*
30156970 ACGGTACCCCGAAC
64 ACGATACCCCGAAC
30156984 ACTTACGTGC
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
81 6 0.09
82 57 0.85
83 4 0.06
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (81 bp):
CATACGTGCCCATGTTTGTAATTCGGTACCCCTGAATTGCACATACATGCCCCTATTTGTACCAC
GATACCCCGAACTCCT
Found at i:30160791 original size:26 final size:26
Alignment explanation
Indices: 30160762--30160812 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
30160752 CAACCTTAAC
* *
30160762 CCTAGGGGTATATCAGTAATTTTTCT
1 CCTAGGGGTAAATCAGTAAATTTTCT
*
30160788 CCTAGGGGTAAATCTGTAAATTTTC
1 CCTAGGGGTAAATCAGTAAATTTTC
30160813 CACCTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAAATTTTCT
Found at i:30160818 original size:27 final size:26
Alignment explanation
Indices: 30160762--30160818 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
30160752 CAACCTTAAC
* * *
30160762 CCTAGGGGTATATCAGTAATTTTTCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
30160788 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
30160815 CCTA
1 CCTA
30160819 TAAATGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:30174112 original size:40 final size:40
Alignment explanation
Indices: 30174053--30174245 Score: 264
Period size: 40 Copynumber: 4.8 Consensus size: 40
30174043 GGATATAGCT
*
30174053 ACTCGCCCAAATGCCTTCGGGACTTAGCCCGGTCAT-GTTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTCATAG-TA
* *
30174093 ATTCGCACAAATGCCTTCGGGACTTAACCCGGTCATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTCATAGTA
* *
30174133 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTCATAGTA
* * *
30174173 ACTCGCACAATTGCCTTCGGGACTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTCA-TAGTA
* *
30174213 ACTAGCACAAATGCCTTCGGAACTTAGCCCGGT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
30174246 TATTATCCGA
Statistics
Matches: 138, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 136 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTCATAGTA
Found at i:30180667 original size:27 final size:26
Alignment explanation
Indices: 30180623--30180674 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
30180613 CTCGCTGCAA
*
30180623 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
30180650 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
30180675 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:30180712 original size:67 final size:67
Alignment explanation
Indices: 30180604--30180846 Score: 342
Period size: 67 Copynumber: 3.6 Consensus size: 67
30180594 GAGGAAGCAT
* *
30180604 TCTGGTAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
30180669 TA
66 TA
* *
30180671 TCTGGCAGCCTCGCTGCAATCTGGTGGCGTCGCCACATATATCTGTTCTGGTGACTTCGTTACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
30180736 TA
66 TA
* ** * * * *
30180738 TCTAGCAGCCTCTTTGCAATTTGGTGGCTTCGCCACATATGTCTATTTTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
30180803 TA
66 TA
* ** * *
30180805 TTTTCCAGCCTCGTTGTAATCTGGTGGCTTCGCCACATATAT
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATAT
30180847 ATATCTGTTC
Statistics
Matches: 157, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 157 1.00
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.34
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:30185576 original size:43 final size:43
Alignment explanation
Indices: 30185421--30185577 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
30185411 TGTGTTTTCG
*
30185421 TGTAAGACCACGTCTGGGACATTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGA-TTACA
* * * * *
30185465 TGTAAGACCATGTCTGGGACATCGACATC-ATATTTGATTTCG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
* *
30185507 TGTAAGACGC-TGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGAC-CACGTCTGGGACATTGGCATCGATATTTGATTACA
*
30185550 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
30185578 TGTACAAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 29 0.31
43 40 0.42
44 26 0.27
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:30210688 original size:21 final size:20
Alignment explanation
Indices: 30210649--30210688 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
30210639 TATGTATGGG
30210649 TTTTGATGATTGATGATAGA
1 TTTTGATGATTGATGATAGA
* *
30210669 TTTTGAATGGTTGTTGATAG
1 TTTTG-ATGATTGATGATAG
30210689 TTAAAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (20 bp):
TTTTGATGATTGATGATAGA
Found at i:30224285 original size:14 final size:15
Alignment explanation
Indices: 30224249--30224299 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
30224239 ATTTGGTTGA
*
30224249 AAAAATAATTTAATTAG
1 AAAATTAATTTAA-T-G
*
30224266 AAAATTAA-TTAATT
1 AAAATTAATTTAATG
30224280 AAAATTAATTTAATG
1 AAAATTAATTTAATG
30224295 AAAAT
1 AAAAT
30224300 GTTTATTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 8 0.27
15 11 0.37
16 4 0.13
17 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (15 bp):
AAAATTAATTTAATG
Found at i:30225886 original size:5 final size:5
Alignment explanation
Indices: 30225876--30225911 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
30225866 AAAATTTAAA
30225876 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
30225912 GGGATTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:30241485 original size:19 final size:19
Alignment explanation
Indices: 30241442--30241485 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
30241432 GGTAGATCAA
*
30241442 AGAGAAGGTAAGAAAATTT
1 AGAGAAGGTAAGAAAATCT
*
30241461 ATAGAAGAG-AAGAAAATCT
1 AGAGAAG-GTAAGAAAATCT
30241480 AGAGAA
1 AGAGAA
30241486 AAACATCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.25, T:0.16
Consensus pattern (19 bp):
AGAGAAGGTAAGAAAATCT
Found at i:30268190 original size:19 final size:20
Alignment explanation
Indices: 30268156--30268193 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
30268146 AATTTAAAAA
30268156 ATTTAAGAAAAAGAATAAAT
1 ATTTAAGAAAAAGAATAAAT
*
30268176 ATTTAA-AAAATGAATAAA
1 ATTTAAGAAAAAGAATAAA
30268194 GAAAGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (20 bp):
ATTTAAGAAAAAGAATAAAT
Found at i:30273860 original size:16 final size:16
Alignment explanation
Indices: 30273827--30273860 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30273817 TGTCTCTGTT
* *
30273827 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
30273843 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
30273859 AA
1 AA
30273861 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:30277400 original size:16 final size:16
Alignment explanation
Indices: 30277367--30277400 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30277357 GGAGATTGTT
* *
30277367 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
30277383 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
30277399 AA
1 AA
30277401 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:30279865 original size:18 final size:18
Alignment explanation
Indices: 30279842--30279879 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
30279832 TGTTTTTGGG
30279842 TTGCGCTTAAAATATTTT
1 TTGCGCTTAAAATATTTT
30279860 TTGCGCTTAAAATATTTT
1 TTGCGCTTAAAATATTTT
30279878 TT
1 TT
30279880 ACTTTAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.53
Consensus pattern (18 bp):
TTGCGCTTAAAATATTTT
Found at i:30280243 original size:20 final size:18
Alignment explanation
Indices: 30280185--30280245 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 18
30280175 GCAACTACCG
30280185 GAAGAGAAAAAGAAAGGAGA
1 GAAGAGAAAAAGAAA-GA-A
*
30280205 GAAAGGAGAAAAAAAAAAGAA
1 G-AA-GAG-AAAAAGAAAGAA
30280226 GAAGAAGAAGAAAGAAAGAA
1 GAAG-AGAA-AAAGAAAGAA
30280246 AGAAACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
19 3 0.09
20 14 0.41
21 4 0.12
22 5 0.15
23 8 0.24
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
GAAGAGAAAAAGAAAGAA
Found at i:30280844 original size:98 final size:102
Alignment explanation
Indices: 30280730--30280983 Score: 333
Period size: 98 Copynumber: 2.5 Consensus size: 102
30280720 TTATAGTTAT
* * *
30280730 TTATTTTGTTAATAATTTATGAGATTATG-T-TACAAATTGTTAGTGTTTAG-TATAGGGTTTTG
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGTTAT-GGGTTTTG
*
30280792 TGATTTTTTAGTAATGTA-ATTT-AAAAAA-AA-TTATAG
63 TGATATTTTAGTAATGTATATTTAAAAAAATAATTTATAG
* *
30280828 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAATGTTTAGTTATGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGGGTTTTGTGA
*
30280893 TATTTTAGTAATGTATTTTTTAAAAAAAATAATTTTATAG
66 TATTTTAGTAATGTA-TATTT-AAAAAAATAA-TTTATAG
*
30280933 TTATTTTGTTAGTAGTTTATGATTAGGTTATATAAATTGTTAGTGTTTAGT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGT
30280984 GTTTTGTGAT
Statistics
Matches: 137, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
96 6 0.04
97 1 0.01
98 61 0.45
99 3 0.02
100 3 0.02
102 6 0.04
103 2 0.01
105 55 0.40
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.52
Consensus pattern (102 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGGGTTTTGTGA
TATTTTAGTAATGTATATTTAAAAAAATAATTTATAG
Found at i:30280890 original size:23 final size:22
Alignment explanation
Indices: 30280864--30280915 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
30280854 GTTATATAAA
* *
30280864 TTGTTAATGTTTAGTTATGTGTT
1 TTGTTAAT-TTTAGTAATGTATT
*
30280887 TTGTGATATTTTAGTAATGTATT
1 TTGTTA-ATTTTAGTAATGTATT
30280910 TT-TTAA
1 TTGTTAA
30280916 AAAAAATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 2 0.08
23 19 0.79
24 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (22 bp):
TTGTTAATTTTAGTAATGTATT
Found at i:30283385 original size:75 final size:75
Alignment explanation
Indices: 30283305--30283534 Score: 324
Period size: 76 Copynumber: 3.0 Consensus size: 75
30283295 ATAACTTCAC
* *
30283305 ATTTATGTGATGAAGTTTTTGTCATTTTATTTATCAATTTTATGTTTTTTTTGCAATTTAAATAG
1 ATTTATGTAATGAACTTTTTGTCATTTTATTTATCAATTTTATGTTTTTTTTGCAATTTAAATAG
30283370 TAAACTTTAT
66 TAAACTTTAT
*
30283380 ATTTATGTAATG-ACTTTTTTTCATTTTATTTATCAATTTTATGATTTTTTTTTGCAATTTAAAT
1 ATTTATGTAATGAACTTTTTGTCATTTTATTTATCAATTTTATG--TTTTTTTTGCAATTTAAAT
*
30283444 AGTAAACTTTGT
64 AGTAAACTTTAT
*
30283456 ATTTATGTAAT-AACTTTTTCG-CTATTTTAGTTATCAATTTTATGGTTTTTTTT-CAATTTAAA
1 ATTTATGTAATGAACTTTTT-GTC-ATTTTATTTATCAATTTTAT-GTTTTTTTTGCAATTTAAA
*
30283518 TAAATAAACTTTAT
63 T-AGTAAACTTTAT
30283532 ATT
1 ATT
30283535 AACTTTGTAA
Statistics
Matches: 140, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
74 29 0.21
75 21 0.15
76 70 0.50
77 19 0.14
78 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.56
Consensus pattern (75 bp):
ATTTATGTAATGAACTTTTTGTCATTTTATTTATCAATTTTATGTTTTTTTTGCAATTTAAATAG
TAAACTTTAT
Found at i:30286603 original size:18 final size:18
Alignment explanation
Indices: 30286580--30286615 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
30286570 TCCACCAGTC
30286580 GCGCCTACCAGATAGGTG
1 GCGCCTACCAGATAGGTG
30286598 GCGCCTACCAGATAGGTG
1 GCGCCTACCAGATAGGTG
30286616 CCACCTACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.17
Consensus pattern (18 bp):
GCGCCTACCAGATAGGTG
Found at i:30286622 original size:18 final size:18
Alignment explanation
Indices: 30286583--30286624 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
30286573 ACCAGTCGCG
* *
30286583 CCTACCAGATAGGTGGCG
1 CCTACCAGATAGGTGCCA
30286601 CCTACCAGATAGGTGCCA
1 CCTACCAGATAGGTGCCA
30286619 CCTACC
1 CCTACC
30286625 CCCATACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.17
Consensus pattern (18 bp):
CCTACCAGATAGGTGCCA
Found at i:30288669 original size:22 final size:22
Alignment explanation
Indices: 30288644--30288689 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
30288634 GGACAACACT
*
30288644 AATTTGAGGTTAGATTGAAGAA
1 AATTTGAGGTTAGATCGAAGAA
30288666 AATTTGAGGTTAGATCGAAGAA
1 AATTTGAGGTTAGATCGAAGAA
30288688 AA
1 AA
30288690 GAAAAGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.26, T:0.28
Consensus pattern (22 bp):
AATTTGAGGTTAGATCGAAGAA
Found at i:30295409 original size:10 final size:10
Alignment explanation
Indices: 30295394--30295466 Score: 62
Period size: 10 Copynumber: 7.2 Consensus size: 10
30295384 TAATATAGGG
30295394 AATAATATAT
1 AATAATATAT
30295404 AATAATATAT
1 AATAATATAT
* *
30295414 GAT-ATGTAAT
1 AATAATAT-AT
30295424 AA-AATATAT
1 AATAATATAT
*
30295433 AAATAAAATAT
1 -AATAATATAT
30295444 AATGAA-ATAT
1 AAT-AATATAT
30295454 AATAATATGAT
1 AATAATAT-AT
30295465 AA
1 AA
30295467 CTATCATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
9 7 0.14
10 32 0.63
11 12 0.24
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (10 bp):
AATAATATAT
Found at i:30295643 original size:12 final size:12
Alignment explanation
Indices: 30295624--30295660 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
30295614 TAAAATATAT
30295624 AATGTATAATAA
1 AATGTATAATAA
*
30295636 AATTTATAAATAA
1 AATGTAT-AATAA
30295649 AATGTATAATAA
1 AATGTATAATAA
30295661 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:30295649 original size:13 final size:13
Alignment explanation
Indices: 30295624--30295657 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
30295614 TAAAATATAT
30295624 AATGTAT-AATAA
1 AATGTATAAATAA
*
30295636 AATTTATAAATAA
1 AATGTATAAATAA
30295649 AATGTATAA
1 AATGTATAA
30295658 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:30295692 original size:20 final size:19
Alignment explanation
Indices: 30295653--30295693 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
30295643 AAATAAAATG
30295653 TATA-ATAAT-AAAAATAA
1 TATATATAATAAAAAATAA
*
30295670 TATAT-GAATAAAAAATAA
1 TATATATAATAAAAAATAA
30295688 TATATA
1 TATATA
30295694 CTATTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
TATATATAATAAAAAATAA
Found at i:30297330 original size:44 final size:43
Alignment explanation
Indices: 30297280--30297451 Score: 215
Period size: 44 Copynumber: 3.9 Consensus size: 43
30297270 CAAGAATGTC
*
30297280 AAATCTGCTATCTTC-ACTCTGCT-TCCTATCAACACAGAGACGCT
1 AAATCTGCTATCTTCGA-TCTGCTCT-CTA-CAATACAGAGACGCT
*
30297324 AAATCTGCTATCTCCGATCTGCTCTCTAACAATACAGAGACG-T
1 AAATCTGCTATCTTCGATCTGCTCTCT-ACAATACAGAGACGCT
* * *
30297367 CAAATCTTCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCC
1 -AAATCTGCTATCTTCGATCTGCTCTCT-ACAATACAGAGACGCT
30297412 AAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGA
1 AAATCTGCTATCTTCGATCTGCTCTCT-ACAATACAGAGA
30297452 TGCCCTCGAT
Statistics
Matches: 114, Mismatches: 9, Indels: 10
0.86 0.07 0.08
Matches are distributed among these distances:
43 1 0.01
44 110 0.96
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (43 bp):
AAATCTGCTATCTTCGATCTGCTCTCTACAATACAGAGACGCT
Found at i:30297466 original size:32 final size:32
Alignment explanation
Indices: 30297425--30297487 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
30297415 TCTGCTATCT
30297425 TCGATCTGCTCTCTGACAATACAGAGATGCCC
1 TCGATCTGCTCTCTGACAATACAGAGATGCCC
30297457 TCGATCTGCTCTCTGACAATACAGAGATGCC
1 TCGATCTGCTCTCTGACAATACAGAGATGCC
30297488 AAATCTGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (32 bp):
TCGATCTGCTCTCTGACAATACAGAGATGCCC
Found at i:30297478 original size:76 final size:76
Alignment explanation
Indices: 30297383--30297531 Score: 289
Period size: 76 Copynumber: 2.0 Consensus size: 76
30297373 TTCTATCTTT
30297383 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACA
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACA
30297448 GAGATGCCCTC
66 GAGATGCCCTC
*
30297459 GATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACA
1 GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACA
30297524 GAGATGCC
66 GAGATGCC
30297532 AAATCTGCTA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (76 bp):
GATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACA
GAGATGCCCTC
Found at i:30297496 original size:30 final size:32
Alignment explanation
Indices: 30297428--30297496 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
30297418 GCTATCTTCG
**
30297428 ATCTGCTCTCTGACAATACAGAGATGCCCTCG
1 ATCTGCTCTCTGACAATACAGAGATGCCCTAA
30297460 ATCTGCTCTCTGACAATACAGAGATG-CC-AA
1 ATCTGCTCTCTGACAATACAGAGATGCCCTAA
30297490 ATCTGCT
1 ATCTGCT
30297497 ATCTTCGATC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 7 0.20
31 2 0.06
32 26 0.74
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (32 bp):
ATCTGCTCTCTGACAATACAGAGATGCCCTAA
Found at i:30297507 original size:44 final size:44
Alignment explanation
Indices: 30297457--30297590 Score: 250
Period size: 44 Copynumber: 3.0 Consensus size: 44
30297447 AGAGATGCCC
30297457 TCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCT
1 TCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCT
30297501 TCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCT
1 TCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCT
* *
30297545 TCGATTTGCTCTTTGACAATACAGAGATGCCAAATCTGCTATCT
1 TCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCT
30297589 TC
1 TC
30297591 NNNNNNNNNN
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 88 1.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (44 bp):
TCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCT
Found at i:30297555 original size:120 final size:120
Alignment explanation
Indices: 30297338--30297575 Score: 404
Period size: 120 Copynumber: 2.0 Consensus size: 120
30297328 CTGCTATCTC
* * *
30297338 CGATCTGCTCTCTAACAATACAGAGACGTCAAATCTTCTATCTTTGATCTGCTCTCTGACAATAC
1 CGATCTGCTCTCTAACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
30297403 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCCT
66 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCCT
* *
30297458 CGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
1 CGATCTGCTCTCTAACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
* * *
30297523 AGAGATGCCAAATCTGCTATCTTCGATTTGCTCTTTGACAATACAGAGATGCC
66 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCC
30297576 AAATCTGCTA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (120 bp):
CGATCTGCTCTCTAACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCCT
Found at i:30307958 original size:12 final size:14
Alignment explanation
Indices: 30307925--30307951 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30307915 AATAATATAT
30307925 ATAATATAAGGAAG
1 ATAATATAAGGAAG
30307939 ATAATATAAGGAA
1 ATAATATAAGGAA
30307952 TAATATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (14 bp):
ATAATATAAGGAAG
Found at i:30307971 original size:15 final size:15
Alignment explanation
Indices: 30307951--30308096 Score: 56
Period size: 15 Copynumber: 9.7 Consensus size: 15
30307941 AATATAAGGA
30307951 ATAATATATAATAAT
1 ATAATATATAATAAT
* * *
30307966 ATAATATGTAACAAA
1 ATAATATATAATAAT
*
30307981 ATATATAAATAA-AAT
1 ATA-ATATATAATAAT
*
30307996 ATAATGAAAT-ATAA-
1 ATAAT-ATATAATAAT
*
30308010 ATAATACGAT-A-AAT
1 ATAATA-TATAATAAT
*
30308024 ATAATATA-AATAAGG
1 ATAATATATAATAA-T
*
30308039 ATAATATATATNATACT
1 ATAATATATA--ATAAT
**
30308056 ATTTTATATAACTAAT
1 ATAATATATAA-TAAT
* *
30308072 AT-TTATAAAAATAA-
1 ATAATAT-ATAATAAT
30308086 ATAATATATAA
1 ATAATATATAA
30308097 GGTATTTAAT
Statistics
Matches: 100, Mismatches: 17, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
13 5 0.05
14 24 0.24
15 45 0.45
16 15 0.15
17 8 0.08
18 3 0.03
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (15 bp):
ATAATATATAATAAT
Found at i:30307999 original size:11 final size:11
Alignment explanation
Indices: 30307983--30308036 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
30307973 GTAACAAAAT
30307983 ATATAAATAAA
1 ATATAAATAAA
*
30307994 ATAT-AATGAA
1 ATATAAATAAA
30308004 ATATAAATAATA
1 ATATAAATAA-A
** *
30308016 CGATAAATATA
1 ATATAAATAAA
30308027 ATATAAATAA
1 ATATAAATAA
30308037 GGATAATATA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
10 9 0.27
11 16 0.48
12 8 0.24
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (11 bp):
ATATAAATAAA
Found at i:30313365 original size:15 final size:15
Alignment explanation
Indices: 30313340--30313374 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30313330 TTTTTTTCTT
30313340 CTTTT-CCTTCTTTC
1 CTTTTCCCTTCTTTC
*
30313354 CTTTTCCCTTCTTTT
1 CTTTTCCCTTCTTTC
30313369 CTTTTC
1 CTTTTC
30313375 TTTTCTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (15 bp):
CTTTTCCCTTCTTTC
Found at i:30315970 original size:16 final size:16
Alignment explanation
Indices: 30315920--30315971 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
30315910 TTCCACTATG
*
30315920 TATTTTATTACCTATTT
1 TATTTTATTACAT-TTT
* * *
30315937 TAATTAATTTACAATTT
1 TATTTTA-TTACATTTT
30315954 TATTTTATTACATTTT
1 TATTTTATTACATTTT
30315970 TA
1 TA
30315972 CAACATTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
16 10 0.37
17 13 0.48
18 4 0.15
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTTATTACATTTT
Found at i:30317963 original size:131 final size:132
Alignment explanation
Indices: 30317814--30318051 Score: 302
Period size: 131 Copynumber: 1.8 Consensus size: 132
30317804 ACCGAATATT
* * * * * *
30317814 GCCTTCGTTTTAACGGATTTTTAGAAGACACGA-GTGAAATGT-TGAAGGGATATTTGATTATTT
1 GCCTTCGTTTCAACGGATTTTTAAAAGACA-GAGGTGAAAT-TCTAAAGGGACATTCGATTACTT
* *
30317877 TAAGTAGACGAGAAATTGCAACCCAGCACATTAGGGCACGATTCTGTGAATTGCCAAATATAGTA
64 TAAGTAAACGAGAAATTGCAACCCAACACATTAGGGCACGATTCTGTGAATTGCCAAATATAGTA
30317942 CATC
129 CATC
* * * *
30317946 GCCTTCG-TTCAAGGGATTTTTAAAAGACATAGGTGAAATTCTAAAGGGACCTTCGATTACTTTG
1 GCCTTCGTTTCAACGGATTTTTAAAAGACAGAGGTGAAATTCTAAAGGGACATTCGATTACTTTA
* **
30318010 AGTAAATGAGAAATTGCAACCCAACATGTTAGGGCACGATTC
66 AGTAAACGAGAAATTGCAACCCAACACATTAGGGCACGATTC
30318052 CACAAATTAC
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
130 2 0.02
131 80 0.90
132 7 0.08
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (132 bp):
GCCTTCGTTTCAACGGATTTTTAAAAGACAGAGGTGAAATTCTAAAGGGACATTCGATTACTTTA
AGTAAACGAGAAATTGCAACCCAACACATTAGGGCACGATTCTGTGAATTGCCAAATATAGTACA
TC
Found at i:30318078 original size:131 final size:131
Alignment explanation
Indices: 30317751--30318085 Score: 291
Period size: 131 Copynumber: 2.6 Consensus size: 131
30317741 TGTTTTGAGC
** * * ** * * * *
30317751 AAACGAGAAATCACAACCCAGCACGA-TAGGGCATGATTCC-CAAATTGTCGAACACCGAATATT
1 AAACGAGAAATTGCAACCCAACAC-ATTAGGGCACGATTCCACAAATTACCAAATATCGAATATC
* * * * * * *
30317814 GCCTTCGTTTTAACGGATTTTTAGAAGACACGAGTGAAATGTTGAAGGGATATTTGATTATTTTA
65 GCCTTCG-TTCAACGGATTTTTAAAAGACAAGAGTGAAATGTTAAAGGGACATTCGATTACTTTA
30317879 AGT
129 AGT
* * **** * * * *
30317882 AGACGAGAAATTGCAACCCAGCACATTAGGGCACGATTCTGTGAATTGCCAAATATAGTACATCG
1 AAACGAGAAATTGCAACCCAACACATTAGGGCACGATTCCACAAATTACCAAATATCGAATATCG
* * *
30317947 CCTTCGTTCAAGGGATTTTTAAAAGACATAG-GTGAAAT-TCTAAAGGGACCTTCGATTACTTTG
66 CCTTCGTTCAACGGATTTTTAAAAGACA-AGAGTGAAATGT-TAAAGGGACATTCGATTACTTTA
30318010 AGT
129 AGT
* ** *
30318013 AAATGAGAAATTGCAACCCAACATGTTAGGGCACGATTCCACAAATTACCAAGTATCGAATATCG
1 AAACGAGAAATTGCAACCCAACACATTAGGGCACGATTCCACAAATTACCAAATATCGAATATCG
*
30318078 CATTCGTT
66 CCTTCGTT
30318086 TTAAAGAATT
Statistics
Matches: 160, Mismatches: 40, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
130 2 0.01
131 137 0.86
132 21 0.13
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (131 bp):
AAACGAGAAATTGCAACCCAACACATTAGGGCACGATTCCACAAATTACCAAATATCGAATATCG
CCTTCGTTCAACGGATTTTTAAAAGACAAGAGTGAAATGTTAAAGGGACATTCGATTACTTTAAG
T
Found at i:30323282 original size:21 final size:21
Alignment explanation
Indices: 30323228--30323283 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
30323218 TTAGGGATTC
30323228 CACACGGGCGTGTGCTTCGGAG
1 CACACGGGCGTGT-CTTCGGAG
* *
30323250 CACATGGTCGTGT-TTGGCGG-G
1 CACACGGGCGTGTCTT--CGGAG
30323271 CACACGGGCGTGT
1 CACACGGGCGTGT
30323284 GAGACCCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 2 0.07
21 12 0.43
22 14 0.50
ACGTcount: A:0.12, C:0.25, G:0.41, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTCTTCGGAG
Found at i:30323375 original size:32 final size:32
Alignment explanation
Indices: 30323339--30323399 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
30323329 TTTGGATAGT
*
30323339 GAGTTACACGGCCTGTTCACACGGTCGTGCCC
1 GAGTTACACGGCCTGTTCACACGGGCGTGCCC
30323371 GAGTTACACGGCCTGTTCACACGGGCGTG
1 GAGTTACACGGCCTGTTCACACGGGCGTG
30323400 TCCCTACTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.16, C:0.31, G:0.31, T:0.21
Consensus pattern (32 bp):
GAGTTACACGGCCTGTTCACACGGGCGTGCCC
Found at i:30329890 original size:31 final size:31
Alignment explanation
Indices: 30329772--30329901 Score: 120
Period size: 31 Copynumber: 4.2 Consensus size: 31
30329762 CAAAAATATG
* * * * *
30329772 AAAAATTATCATTAAGTTCTTCAAATGTTTT
1 AAAAATTTTAATTAAGTTATTTAAAAGTTTT
* ** *
30329803 AAAAATTTTATTTAGACCT-CTTAAAAGTTTT
1 AAAAATTTTAATTA-AGTTATTTAAAAGTTTT
* * *
30329834 TAAAATTTTAATTAAATTATATAAAAGTTTT
1 AAAAATTTTAATTAAGTTATTTAAAAGTTTT
30329865 AAAAATTTTAATTAAGTTATTTAAAA-TTTT
1 AAAAATTTTAATTAAGTTATTTAAAAGTTTT
*
30329895 GAAAATT
1 AAAAATT
30329902 CTCTTTAATT
Statistics
Matches: 79, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
30 12 0.15
31 65 0.82
32 2 0.03
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (31 bp):
AAAAATTTTAATTAAGTTATTTAAAAGTTTT
Found at i:30330503 original size:3 final size:3
Alignment explanation
Indices: 30330495--30330544 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
30330485 TATCAAACCT
30330495 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
30330543 TA
1 TA
30330545 GAGAATGAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:30331497 original size:25 final size:25
Alignment explanation
Indices: 30331461--30331512 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
30331451 ATAATATCAT
*
30331461 CTATAAAGTTTAAACTTCAAACAAA
1 CTATAAAATTTAAACTTCAAACAAA
30331486 CTATAAAATTTAAACTTCAAACAAA
1 CTATAAAATTTAAACTTCAAACAAA
30331511 CT
1 CT
30331513 TCAAACTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (25 bp):
CTATAAAATTTAAACTTCAAACAAA
Found at i:30332903 original size:22 final size:22
Alignment explanation
Indices: 30332878--30332952 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
30332868 TATGAAATAG
*
30332878 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
30332900 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
30332925 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
30332947 AGATAA
1 ATATAA
30332953 CATGTAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:30332922 original size:25 final size:24
Alignment explanation
Indices: 30332884--30332946 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
30332874 ATAGATATAA
** *
30332884 AAAAAATATGTACATAATATAGTGT
1 AAAAAATACATACATAATATAAT-T
30332909 AAAAAATACATACATAATATAATT
1 AAAAAATACATACATAATATAATT
30332933 AAAATATATACATA
1 AAAA-A-ATACATA
30332947 AGATAACATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (24 bp):
AAAAAATACATACATAATATAATT
Found at i:30333004 original size:25 final size:24
Alignment explanation
Indices: 30332968--30333099 Score: 110
Period size: 23 Copynumber: 5.6 Consensus size: 24
30332958 AGAAAAAAAT
*
30332968 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATT-AAG
* *
30332993 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAGTATTAAG
* * *
30333016 ATATATACGTAATATAGAATTTAG
1 ATATATACATAATATAGTATTAAG
* * *
30333040 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAGTATTAAG
* *
30333062 AATATATATATAATATAATATTAAG
1 -ATATATACATAATATAGTATTAAG
*
30333087 AAATATA-ATAATA
1 ATATATACATAATA
30333100 ACAAAAAAAA
Statistics
Matches: 85, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.02
23 39 0.46
24 24 0.28
25 20 0.24
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (24 bp):
ATATATACATAATATAGTATTAAG
Found at i:30333075 original size:24 final size:23
Alignment explanation
Indices: 30333048--30333099 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
30333038 AGAATATACC
*
30333048 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
30333072 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
30333095 TAATA
1 TAATA
30333100 ACAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:30333616 original size:30 final size:30
Alignment explanation
Indices: 30333580--30333677 Score: 169
Period size: 30 Copynumber: 3.3 Consensus size: 30
30333570 AGGTACAAGT
*
30333580 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
30333610 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
* *
30333640 GGTGGTGGAGCAAATGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
30333670 GGTGGTGG
1 GGTGGTGG
30333678 CAAAGGCTAG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:30343553 original size:25 final size:23
Alignment explanation
Indices: 30343501--30343555 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
30343491 TATAAATAGT
30343501 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
30343524 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
30343549 AATAGTG
1 AATAGTG
30343556 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:30343636 original size:22 final size:22
Alignment explanation
Indices: 30343611--30343685 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
30343601 TATGAAATAG
*
30343611 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
30343633 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
30343658 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
30343680 AGATAA
1 ATATAA
30343686 CATGTAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:30343655 original size:25 final size:24
Alignment explanation
Indices: 30343617--30343679 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
30343607 ATAGATATAA
** *
30343617 AAAAAATATGTACATAATATAGTGT
1 AAAAAATACATACATAATATAAT-T
30343642 AAAAAATACATACATAATATAATT
1 AAAAAATACATACATAATATAATT
30343666 AAAATATATACATA
1 AAAA-A-ATACATA
30343680 AGATAACATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (24 bp):
AAAAAATACATACATAATATAATT
Found at i:30343765 original size:23 final size:25
Alignment explanation
Indices: 30343701--30343832 Score: 91
Period size: 23 Copynumber: 5.6 Consensus size: 25
30343691 AGAAAAAAAA
*
30343701 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* * *
30343726 ATATTTACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
30343749 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
30343773 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
30343795 AATATATATATAATATAATATTAAA-
1 -ATATATACATAATATAGTATTAAAG
*
30343820 AAATATA-ATAATA
1 ATATATACATAATA
30343833 ACAAAAAAAG
Statistics
Matches: 83, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 37 0.45
24 22 0.27
25 17 0.20
26 4 0.05
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:30344354 original size:30 final size:30
Alignment explanation
Indices: 30344314--30344381 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
30344304 AGGTACAAGT
*
30344314 GGTGCTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
* *
30344344 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
30344374 GGTGGTGG
1 GGTGGTGG
30344382 CAAAGGCTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.18, C:0.07, G:0.50, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
Found at i:30345331 original size:16 final size:16
Alignment explanation
Indices: 30345310--30345342 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30345300 TCATATATTT
*
30345310 ATCAATAATTGAACTA
1 ATCAATAATTCAACTA
30345326 ATCAATAATTCAACTA
1 ATCAATAATTCAACTA
30345342 A
1 A
30345343 CTTTTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (16 bp):
ATCAATAATTCAACTA
Found at i:30345946 original size:18 final size:18
Alignment explanation
Indices: 30345923--30345983 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
30345913 AAGCCCCCCC
30345923 AAAAAAAACCTAACCAAA
1 AAAAAAAACCTAACCAAA
* *
30345941 AAAAAAAA--GAA-GAAA
1 AAAAAAAACCTAACCAAA
*
30345956 AAAGAAAAACCTAACCCAA
1 AAA-AAAAACCTAACCAAA
30345975 AAAAAAAAC
1 AAAAAAAAC
30345984 TAAGAAACCC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 6 0.18
16 7 0.21
18 16 0.47
19 5 0.15
ACGTcount: A:0.75, C:0.16, G:0.05, T:0.03
Consensus pattern (18 bp):
AAAAAAAACCTAACCAAA
Found at i:30345986 original size:17 final size:16
Alignment explanation
Indices: 30345923--30345986 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
30345913 AAGCCCCCCC
*
30345923 AAAAAAAACCTAACCA
1 AAAAAAAAACTAACCA
** **
30345939 AAAAAAAAAAGAAGAA
1 AAAAAAAAACTAACCA
30345955 AAAAGAAAAACCTAACCCA
1 AAAA-AAAAA-CTAA-CCA
30345974 AAAAAAAAACTAA
1 AAAAAAAAACTAA
30345987 GAAACCCTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
16 15 0.42
17 9 0.25
18 7 0.19
19 5 0.14
ACGTcount: A:0.75, C:0.16, G:0.05, T:0.05
Consensus pattern (16 bp):
AAAAAAAAACTAACCA
Found at i:30347332 original size:44 final size:44
Alignment explanation
Indices: 30347268--30347354 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
30347258 CGATCACACC
30347268 TGATAAAAGATTGGTGGCGACTCCCGTTTAAATTTTCACTTTCT
1 TGATAAAAGATTGGTGGCGACTCCCGTTTAAATTTTCACTTTCT
*
30347312 TGATAAAAGATTGGTTGCGACTCCCGTTTAAATTTTCACTTTC
1 TGATAAAAGATTGGTGGCGACTCCCGTTTAAATTTTCACTTTC
30347355 AAACAAAGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.39
Consensus pattern (44 bp):
TGATAAAAGATTGGTGGCGACTCCCGTTTAAATTTTCACTTTCT
Found at i:30357607 original size:76 final size:74
Alignment explanation
Indices: 30357465--30357974 Score: 262
Period size: 74 Copynumber: 6.6 Consensus size: 74
30357455 AGGTATTTTT
* *
30357465 AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTACGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAATT
30357530 TCTGTTGTC
66 TCTGTTGTC
** * * *
30357539 AAAAAAATCAACTTGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTACGAGAGGCGAGTTGAGCCTCAGG--ACACGCCGAGGTAATTTCAA
* *
30357604 TTTCCGTTTTTC
64 TTTCTG-TTGTC
* * * * *
30357616 AATTTCTGCCTTTCAAAAA--AA-TCA-ACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACAT
1 AA------------AAAAATCAACTCATA-T--TA-CGAGAG--GCGAGTTGAGCCTCAGGACAC
*
30357677 GCTGAGGTAATTTCAATTTCTGTTGTC
48 GCCGAGGTAATTTCAATTTCTGTTGTC
* *** * * * *
30357704 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTACGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAATT
* *
30357769 TTTGTCTTTC
66 TCTGT-TGTC
* * * ** ** *
30357779 -AAAACA--AACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGTTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTACGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAATT
*
30357841 TCTGTTTTC
66 TCTGTTGTC
** * * * * * *
30357850 AAAAAAAAAAATCAACTTGTATTGCGAGAGGTGAGTTGAGCCT-TGGTTCACATGCTGAGGTATT
1 ----AAAAAAATCAACTCATATTACGAGAGGCGAGTTGAGCCTCAGG---ACACGCCGAGGTAAT
*
30357914 TTCAATTTCTGTCTTTC
59 TTCAATTTCTGT-TGTC
* * *
30357931 AGAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 --AAAAAAATCAACTCATATTACGAGAGGCGAGTTGAGCCTCAG
30357975 ATCACACACT
Statistics
Matches: 346, Mismatches: 52, Indels: 70
0.74 0.11 0.15
Matches are distributed among these distances:
71 4 0.01
72 53 0.15
74 82 0.24
75 3 0.01
76 36 0.10
77 9 0.03
78 30 0.09
79 41 0.12
80 27 0.08
81 4 0.01
85 1 0.00
86 2 0.01
87 2 0.01
88 7 0.02
89 31 0.09
91 14 0.04
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (74 bp):
AAAAAAATCAACTCATATTACGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAATT
TCTGTTGTC
Found at i:30357649 original size:91 final size:88
Alignment explanation
Indices: 30357522--30357696 Score: 235
Period size: 91 Copynumber: 2.0 Consensus size: 88
30357512 GCTGAGGTAA
** * *
30357522 TTTCAATTTCTGTTGTCAAAAAAATCAACTTGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTGGAGCCTCAGG--ACA
*
30357587 CGCCGAGGTATTTTCAATTTCCGTT
64 CGCCGAGGTAATTTCAATTTCCGTT
*
30357612 TTTCAATTTCTGCCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
1 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTGGAGCCTCAGGACA
* *
30357676 TGCTGAGGTAATTTCAATTTC
64 CGCCGAGGTAATTTCAATTTC
30357697 TGTTGTCAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
89 21 0.28
90 12 0.16
91 40 0.53
92 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (88 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTGGAGCCTCAGGACACG
CCGAGGTAATTTCAATTTCCGTT
Found at i:30357738 original size:165 final size:161
Alignment explanation
Indices: 30357465--30357974 Score: 564
Period size: 165 Copynumber: 3.3 Consensus size: 161
30357455 AGGTATTTTT
*
30357465 AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * *
30357530 TCTGTTGTCAAAAAAATCAACTTGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGG
66 TCTGTTGTCAAAAAAATCAACTTGTATTGCGAGAGGTGAGTTGAGCCTTAGGTCACATGCTGAGG
30357595 TATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
131 TATTTTCAATTT-CG-TTTTC-ATTT-TGCCTTTC
* *
30357630 AAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACATGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
** ** * *
30357695 TCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACATGCTGAGG
66 TCTGTTGTCAAAAAAATCAACTTGTATTGCGAGAGGTGAGTTGAGCCTTAGGTCACATGCTGAGG
*
30357758 TATTTTCAA--------T--TTTTGTCTTTC
131 TATTTTCAATTTCGTTTTCATTTTGCCTTTC
* ** * *
30357779 -AAAACA--AACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGTTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
*
30357841 TCTGTTTTCAAAAAAAAAAATCAACTTGTATTGCGAGAGGTGAGTTGAGCCTT-GGTTCACATGC
66 TCTGTTGTC----AAAAAAATCAACTTGTATTGCGAGAGGTGAGTTGAGCCTTAGG-TCACATGC
* **
30357905 TGAGGTATTTTCAATTTC--TGTC--TTT--C--AG
126 TGAGGTATTTTCAATTTCGTTTTCATTTTGCCTTTC
*
30357933 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
30357975 ATCACACACT
Statistics
Matches: 295, Mismatches: 33, Indels: 42
0.80 0.09 0.11
Matches are distributed among these distances:
146 58 0.20
148 5 0.02
149 8 0.03
150 38 0.13
152 20 0.07
153 1 0.00
155 5 0.02
156 1 0.00
157 30 0.10
158 4 0.01
163 18 0.06
165 107 0.36
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (161 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TCTGTTGTCAAAAAAATCAACTTGTATTGCGAGAGGTGAGTTGAGCCTTAGGTCACATGCTGAGG
TATTTTCAATTTCGTTTTCATTTTGCCTTTC
Found at i:30357830 original size:72 final size:74
Alignment explanation
Indices: 30357611--30357974 Score: 423
Period size: 74 Copynumber: 4.8 Consensus size: 74
30357601 CAATTTCCGT
* *
30357611 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
30357676 TGCTGAGGTA
65 TGCTGAGGTA
* * ** *
30357686 ATTTCAATTTCTGT-TGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
30357750 TGCTGAGGTA
65 TGCTGAGGTA
* * ** *
30357760 TTTTCAATTTTTGTCTTTC-AAAACA-AACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACAC
1 TTTTCAATTTCTGTCTTTCAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
*
30357823 GTTGAGGTA
66 GCTGAGGTA
** *
30357832 TTTTCAATTTCTGT-TTTCAAAAAAAAAAATCAACTTGTATTGCGAGAGGTGAGTTGAGCCT-TG
1 TTTTCAATTTCTGTCTTTC----AAAAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
30357895 GTTCACATGCTGAGGTA
61 G---ACATGCTGAGGTA
*
30357912 TTTTCAATTTCTGTCTTTCAGAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TTTTCAATTTCTGTCTTTC--AAAAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
30357975 ATCACACACT
Statistics
Matches: 246, Mismatches: 30, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
71 4 0.02
72 53 0.22
74 72 0.29
75 15 0.06
76 5 0.02
77 2 0.01
78 28 0.11
79 37 0.15
80 26 0.11
81 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (74 bp):
TTTTCAATTTCTGTCTTTCAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
GCTGAGGTA
Found at i:30358750 original size:18 final size:17
Alignment explanation
Indices: 30358727--30358786 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
30358717 AAGCCCCTCC
30358727 AAAAAAAACCTAACCAA
1 AAAAAAAACCTAACCAA
* **
30358744 AAAAAAAA--GAAGAAA
1 AAAAAAAACCTAACCAA
30358759 AAAGAAAAACCTAACCCAA
1 AAA-AAAAACCTAA-CCAA
30358778 AAAAAAAAC
1 AAAAAAAAC
30358787 TAAGAAACCC
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 7 0.21
16 5 0.15
17 8 0.24
18 8 0.24
19 5 0.15
ACGTcount: A:0.75, C:0.17, G:0.05, T:0.03
Consensus pattern (17 bp):
AAAAAAAACCTAACCAA
Found at i:30358789 original size:17 final size:16
Alignment explanation
Indices: 30358727--30358789 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
30358717 AAGCCCCTCC
*
30358727 AAAAAAAACCTAACCA
1 AAAAAAAAACTAACCA
* **
30358743 AAAAAAAAA-GAAGAA
1 AAAAAAAAACTAACCA
30358758 AAAAGAAAAACCTAACCCA
1 AAAA-AAAAA-CTAA-CCA
30358777 AAAAAAAAACTAA
1 AAAAAAAAACTAA
30358790 GAAACCCTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
15 7 0.19
16 13 0.36
17 4 0.11
18 7 0.19
19 5 0.14
ACGTcount: A:0.75, C:0.16, G:0.05, T:0.05
Consensus pattern (16 bp):
AAAAAAAAACTAACCA
Found at i:30359498 original size:5 final size:5
Alignment explanation
Indices: 30359488--30359626 Score: 269
Period size: 5 Copynumber: 27.6 Consensus size: 5
30359478 TATATTAAGA
30359488 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
30359538 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
30359588 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAGT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T ATA
30359627 TTTATTATTA
Statistics
Matches: 133, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 129 0.97
6 4 0.03
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:30360172 original size:17 final size:17
Alignment explanation
Indices: 30360150--30360183 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30360140 ATCCACTAAT
*
30360150 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
30360167 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
30360184 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:30364811 original size:17 final size:17
Alignment explanation
Indices: 30364789--30364822 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30364779 ATCCACTAAT
*
30364789 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
30364806 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
30364823 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:30365851 original size:12 final size:12
Alignment explanation
Indices: 30365834--30365859 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30365824 ATTTTGAGCT
30365834 ACACTGATGGTC
1 ACACTGATGGTC
30365846 ACACTGATGGTC
1 ACACTGATGGTC
30365858 AC
1 AC
30365860 CCTGTTGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (12 bp):
ACACTGATGGTC
Found at i:30370977 original size:47 final size:47
Alignment explanation
Indices: 30370919--30371139 Score: 370
Period size: 47 Copynumber: 4.7 Consensus size: 47
30370909 ATATTTCCTG
*
30370919 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATT
1 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATC
* * *
30370966 GTTTGGGGAACAAAGATTTTAGTTAAATAAGCTATACTCACACTATC
1 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATC
*
30371013 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATT
1 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATC
* * *
30371060 GTTTGGGGAACAAAGATTTTAGTTAAATAAGCTATACTCACACTATC
1 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATC
30371107 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCT
1 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCT
30371140 TTTTTTTAAA
Statistics
Matches: 160, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 160 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (47 bp):
GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATC
Found at i:30371080 original size:94 final size:94
Alignment explanation
Indices: 30370919--30371139 Score: 442
Period size: 94 Copynumber: 2.4 Consensus size: 94
30370909 ATATTTCCTG
30370919 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATTGTTTGGGGAACAAAGATT
1 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATTGTTTGGGGAACAAAGATT
30370984 TTAGTTAAATAAGCTATACTCACACTATC
66 TTAGTTAAATAAGCTATACTCACACTATC
30371013 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATTGTTTGGGGAACAAAGATT
1 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATTGTTTGGGGAACAAAGATT
30371078 TTAGTTAAATAAGCTATACTCACACTATC
66 TTAGTTAAATAAGCTATACTCACACTATC
30371107 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCT
1 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCT
30371140 TTTTTTTAAA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 127 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (94 bp):
GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATTGTTTGGGGAACAAAGATT
TTAGTTAAATAAGCTATACTCACACTATC
Found at i:30373678 original size:22 final size:22
Alignment explanation
Indices: 30373653--30373759 Score: 88
Period size: 22 Copynumber: 4.9 Consensus size: 22
30373643 GTATGGGTTT
* *
30373653 AACACTTTTGTGCTCTTTGTTC
1 AACACTTTGGTGCTCTCTGTTC
30373675 AACACTTTGGTGCTCTCTGTTC
1 AACACTTTGGTGCTCTCTGTTC
** * * * *
30373697 AGTACTTCGATACTCTCTGATC
1 AACACTTTGGTGCTCTCTGTTC
* * *
30373719 AGCACTTTGGTGCTCTCTATTT
1 AACACTTTGGTGCTCTCTGTTC
* * *
30373741 AGCAGTATGGTGCTCTCTG
1 AACACTTTGGTGCTCTCTG
30373760 GTGTGGTCTA
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 67 1.00
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (22 bp):
AACACTTTGGTGCTCTCTGTTC
Found at i:30378767 original size:12 final size:11
Alignment explanation
Indices: 30378743--30378774 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
30378733 AAAGTAAATA
30378743 AATAAATAATC
1 AATAAATAATC
30378754 AATAAATCAATC
1 AATAAAT-AATC
30378766 AATAAATAA
1 AATAAATAA
30378775 ACAGTTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAAATAATC
Found at i:30380441 original size:45 final size:44
Alignment explanation
Indices: 30380384--30380634 Score: 261
Period size: 45 Copynumber: 5.6 Consensus size: 44
30380374 TTTAATCTAT
* * * * *
30380384 TCCACAACAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTAC
1 TCCACTACAACTTTAGGGAGATAAGATTAG-TACCTTCAATCTGC
* * * * *
30380429 TCCGCTACAACTTCAAGGAGATAAAATTGGATACCTTCAATCTGC
1 TCCACTACAACTTTAGGGAGATAAGATTAG-TACCTTCAATCTGC
* ** * ** *
30380474 TTCACTGTAACTTTAGAGAGATAAGATTAGTGGCTTCAATTTGC
1 TCCACTACAACTTTAGGGAGATAAGATTAGTACCTTCAATCTGC
* *
30380518 TCCACTACAACTTTAGGGAGATAAAATTGGCTACCTTCAATCTGC
1 TCCACTACAACTTTAGGGAGATAAGATTAG-TACCTTCAATCTGC
** *
30380563 TCCACTGTAACTTTAGGGAGATAAGATTAGTGA-CTTCAATCTGT
1 TCCACTACAACTTTAGGGAGATAAGATTAGT-ACCTTCAATCTGC
30380607 TCCACTACAACTTTAGGGAGATAAGATT
1 TCCACTACAACTTTAGGGAGATAAGATT
30380635 CACCATGGTA
Statistics
Matches: 166, Mismatches: 38, Indels: 5
0.79 0.18 0.02
Matches are distributed among these distances:
44 72 0.43
45 94 0.57
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (44 bp):
TCCACTACAACTTTAGGGAGATAAGATTAGTACCTTCAATCTGC
Found at i:30380538 original size:89 final size:89
Alignment explanation
Indices: 30380392--30380630 Score: 336
Period size: 89 Copynumber: 2.7 Consensus size: 89
30380382 ATTCCACAAC
* * * * * * *
30380392 AACTTTAGGGAAATAAGATTTGCT-ATCTTCAATCTACTCCGCTACAACTTCAAGGAGATAAAAT
1 AACTTTAGAGAGATAAGATTAG-TGA-CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAAAT
*
30380456 TGGATACCTTCAATCTGCTTCACTGT
64 TGGATACCTTCAATCTGCTCCACTGT
* *
30380482 AACTTTAGAGAGATAAGATTAGTGGCTTCAATTTGCTCCACTACAACTTTAGGGAGATAAAATTG
1 AACTTTAGAGAGATAAGATTAGTGACTTCAATCTGCTCCACTACAACTTTAGGGAGATAAAATTG
*
30380547 GCTACCTTCAATCTGCTCCACTGT
66 GATACCTTCAATCTGCTCCACTGT
* *
30380571 AACTTTAGGGAGATAAGATTAGTGACTTCAATCTGTTCCACTACAACTTTAGGGAGATAA
1 AACTTTAGAGAGATAAGATTAGTGACTTCAATCTGCTCCACTACAACTTTAGGGAGATAA
30380631 GATTCACCAT
Statistics
Matches: 133, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
89 114 0.86
90 19 0.14
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (89 bp):
AACTTTAGAGAGATAAGATTAGTGACTTCAATCTGCTCCACTACAACTTTAGGGAGATAAAATTG
GATACCTTCAATCTGCTCCACTGT
Found at i:30380804 original size:44 final size:45
Alignment explanation
Indices: 30380391--30380823 Score: 165
Period size: 45 Copynumber: 9.5 Consensus size: 45
30380381 TATTCCACAA
* * * * * * * * * *
30380391 CAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTACTCCGCTA
1 CAACTTCAGGGAGATAAAATTAGATAGCTTCAATATGCTCCACTG
* * * * *
30380436 CAACTTCAAGGAGATAAAATTGGATACCTTCAATCTGCTTCACTG
1 CAACTTCAGGGAGATAAAATTAGATAGCTTCAATATGCTCCACTG
* * * * * * *
30380481 TAACTTTAGAGAGATAAGATTAG-TGGCTTCAATTTGCTCCACTA
1 CAACTTCAGGGAGATAAAATTAGATAGCTTCAATATGCTCCACTG
* * * * *
30380525 CAACTTTAGGGAGATAAAATTGGCTACCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAAATTAGATAGCTTCAATATGCTCCACTG
* * * * * *
30380570 TAACTTTAGGGAGATAAGATTAG-T-GACTTCAATCTGTTCCACTA
1 CAACTTCAGGGAGATAAAATTAGATAG-CTTCAATATGCTCCACTG
* * * * ** * ** *
30380614 CAACTTTAGGGAGATAAGATTCACCATGGTAGATTTTATCTGAACTACTG
1 CAACTTCAGGGAGATAAAATT----A-GATAGCTTCAATATGCTCCACTG
* * * * * * * **
30380664 CAATTTCA-GAAGTATAGATTTGTGACTTGTAGCTTTAATCTATTCCACTG
1 CAACTTCAGGGAG-ATAAAATT-AGA----TAGCTTCAATATGCTCCACTG
* * * * *
30380714 CAACTTCAGGGAAATAAAATTTGATATCTTCAATCTGCTCCGCTG
1 CAACTTCAGGGAGATAAAATTAGATAGCTTCAATATGCTCCACTG
* * *
30380759 CAACTTCAGGGAGATAAGATTAG-TGGCTTCAATATGCTCTACTG
1 CAACTTCAGGGAGATAAAATTAGATAGCTTCAATATGCTCCACTG
* *
30380803 CAACTTTAAGGAGATAAAATT
1 CAACTTCAGGGAGATAAAATT
30380824 CTCTGTAATA
Statistics
Matches: 293, Mismatches: 80, Indels: 31
0.73 0.20 0.08
Matches are distributed among these distances:
44 106 0.36
45 124 0.42
46 1 0.00
48 1 0.00
49 7 0.02
50 51 0.17
51 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (45 bp):
CAACTTCAGGGAGATAAAATTAGATAGCTTCAATATGCTCCACTG
Found at i:30380822 original size:89 final size:89
Alignment explanation
Indices: 30380391--30380823 Score: 323
Period size: 89 Copynumber: 4.7 Consensus size: 89
30380381 TATTCCACAA
* * * ** * * * *
30380391 CAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTACTCCGCTACAACTTCAAGGAGATAAAAT
1 CAACTTCAGGGAGATAAGATTAG-TGGCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAAAT
*
30380456 TGGATACCTTCAATCTGCTTCACTG
65 TGGATACCTTCAATCTGCTCCACTG
* * * *
30380481 TAACTTTAGAGAGATAAGATTAGTGGCTTCAATTTGCTCCACTACAACTTTAGGGAGATAAAATT
1 CAACTTCAGGGAGATAAGATTAGTGGCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAAATT
*
30380546 GGCTACCTTCAATCTGCTCCACTG
66 GGATACCTTCAATCTGCTCCACTG
* * * *
30380570 TAACTTTAGGGAGATAAGATTAGTGACTTCAATCTGTTCCACTACAACTTTAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATTAGTGGCTTCAATCTGCTCCACTACAACTTTAGGGAGATAA-A--
* ** ** ** *
30380635 CACCATGG-TAGATTTTATCTGAACTACTG
63 -A--TTGGATACCTTCAATCTGCTCCACTG
* * * * ** * * *
30380664 CAATTTCA-GAAG-TATAGATTTGTGACTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAA
1 CAACTTCAGGGAGATA-AGA--T-T-A---GTGGCTTCAATCTGCTCCACTACAACTTTAGGGAG
* * *
30380727 ATAAAATTTGATATCTTCAATCTGCTCCGCTG
58 ATAAAATTGGATACCTTCAATCTGCTCCACTG
* * * *
30380759 CAACTTCAGGGAGATAAGATTAGTGGCTTCAATATGCTCTACTGCAACTTTAAGGAGATAAAATT
1 CAACTTCAGGGAGATAAGATTAGTGGCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAAATT
30380824 CTCTGTAATA
Statistics
Matches: 269, Mismatches: 57, Indels: 35
0.75 0.16 0.10
Matches are distributed among these distances:
89 148 0.55
90 20 0.07
92 3 0.01
93 8 0.03
94 22 0.08
95 24 0.09
96 8 0.03
97 3 0.01
99 1 0.00
100 32 0.12
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (89 bp):
CAACTTCAGGGAGATAAGATTAGTGGCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAAATT
GGATACCTTCAATCTGCTCCACTG
Found at i:30387450 original size:19 final size:19
Alignment explanation
Indices: 30387428--30387465 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30387418 GGTCCTTTTG
*
30387428 TGAAATTTAATGCATATGA
1 TGAAATGTAATGCATATGA
*
30387447 TGAACTGTAATGCATATGA
1 TGAAATGTAATGCATATGA
30387466 ATGGAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (19 bp):
TGAAATGTAATGCATATGA
Found at i:30388035 original size:15 final size:15
Alignment explanation
Indices: 30388015--30388047 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
30388005 CTTCAGTACC
*
30388015 AAATAAATAATAAAT
1 AAATAAATAACAAAT
30388030 AAATAAATAACAAAT
1 AAATAAATAACAAAT
30388045 AAA
1 AAA
30388048 GCACCTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAATAACAAAT
Found at i:30389338 original size:29 final size:30
Alignment explanation
Indices: 30389282--30389356 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 30
30389272 AATAGTAATG
* * *
30389282 TAATGAATAATAATATTAATAATCAAA-TTA
1 TAAT-AATAATAAAATAAATAAGCAAACTTA
*
30389312 TAATAATAATAAAATAAATAAGGAAATCTTA
1 TAATAATAATAAAATAAATAAGCAAA-CTTA
*
30389343 AAATAA-AATAAAAT
1 TAATAATAATAAAAT
30389357 GGAAAATGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 18 0.47
30 12 0.32
31 8 0.21
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.31
Consensus pattern (30 bp):
TAATAATAATAAAATAAATAAGCAAACTTA
Found at i:30389554 original size:9 final size:9
Alignment explanation
Indices: 30389540--30389571 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
30389530 AAAAAAAAGT
30389540 AAATAAATA
1 AAATAAATA
30389549 AAATAAATA
1 AAATAAATA
30389558 AAATAAATA
1 AAATAAATA
30389567 AAATA
1 AAATA
30389572 GTTTGTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATAAATA
Found at i:30397257 original size:18 final size:19
Alignment explanation
Indices: 30397234--30397273 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
30397224 TATATGTTGT
*
30397234 TTTTTTTAATTGT-TAAAA
1 TTTTTTCAATTGTATAAAA
*
30397252 TTTTTTCAATTTTATAAAA
1 TTTTTTCAATTGTATAAAA
30397271 TTT
1 TTT
30397274 GTGCATAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTTTCAATTGTATAAAA
Found at i:30399271 original size:32 final size:32
Alignment explanation
Indices: 30399235--30399299 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
30399225 TGTATACATT
30399235 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
30399267 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
30399299 T
1 T
30399300 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:30401240 original size:15 final size:15
Alignment explanation
Indices: 30401220--30401258 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
30401210 CTATTACCTG
30401220 AATGGGCTTAGGCCC
1 AATGGGCTTAGGCCC
30401235 AATGGGCTTAGGCCC
1 AATGGGCTTAGGCCC
30401250 AATGGGCTT
1 AATGGGCTT
30401259 GAGTTGACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (15 bp):
AATGGGCTTAGGCCC
Found at i:30402460 original size:12 final size:12
Alignment explanation
Indices: 30402443--30402473 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
30402433 ACTCAGGGAA
30402443 GAGGCCGTGGTC
1 GAGGCCGTGGTC
30402455 GAGGCCGTGGTC
1 GAGGCCGTGGTC
30402467 GAGGCCG
1 GAGGCCG
30402474 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:30407356 original size:32 final size:32
Alignment explanation
Indices: 30407320--30407384 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
30407310 TGTATGCATT
30407320 TTAGCATTTTAATAGTTAATGGATGATGAGCA
1 TTAGCATTTTAATAGTTAATGGATGATGAGCA
*
30407352 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGAGCA
30407384 T
1 T
30407385 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGAGCA
Found at i:30408895 original size:26 final size:26
Alignment explanation
Indices: 30408866--30408918 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
30408856 TTTACAGTTT
30408866 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
30408892 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
30408918 T
1 T
30408919 GCTTGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:30410048 original size:40 final size:41
Alignment explanation
Indices: 30409981--30410095 Score: 121
Period size: 40 Copynumber: 2.9 Consensus size: 41
30409971 CATTTCAATA
* *
30409981 AACCGAAGCTATCTCGGTA-TCGCACACTTAGTGCC-TCATAT
1 AACCGAAGCTAT-TCTGAACTCGCACACTTAGTGCCAT-ATAT
** * *
30410022 AGTCGAAGCTATTCT-AACTCGCACACTTAGTGCCATTTGT
1 AACCGAAGCTATTCTGAACTCGCACACTTAGTGCCATATAT
*
30410062 AACCGAAGCTATTTTGAACT-GCACACTTAGTGCC
1 AACCGAAGCTATTCTGAACTCGCACACTTAGTGCC
30410096 GAACTTAGTC
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.74
41 15 0.24
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (41 bp):
AACCGAAGCTATTCTGAACTCGCACACTTAGTGCCATATAT
Done.